LiteFold/InterPro · Datasets at Hugging Face

IPR019977

19,977

Small ribosomal subunit protein uS13, archaea

Ribosomal_uS13_arc

Family

790

false

This entry represents archaeal ribosomal uS13 proteins. Small ribosomal subunit protein uS13, previously known as Ribosomal protein S13, is one of the proteins from the small ribosomal subunit. In Escherichia coli, it is known to be involved in binding fMet-tRNA and, hence, in the initiation of translation. It is a bas...

[ "GO:0003723", "GO:0003735", "GO:0006412", "GO:0005840" ]

[ "RNA binding", "structural constituent of ribosome", "translation", "ribosome" ]

[ "molecular_function", "molecular_function", "biological_process", "cellular_component" ]

4

[ "NCBIFAM" ]

[ "TIGR03629" ]

[ "uS13_arch" ]

[ 790 ]

1

[]

0

[ "4v4n", "4v6u", "5jb3", "5jbh", "6skf", "6skg", "6sw9", "6swc", "6swe", "6th6", "6tmf", "7zag", "7zah", "7zai", "7zhg", "8hkx", "8hky", "8hkz", "8hl1", "8hl2", "8hl3", "8hl4", "8hl5", "8wkp", "8wq2", "8wq4", "9e71", "9e7f", "9fhl", "9fny", "9fnz", "9fo0"...

43

[ "PUB00000201", "PUB00007068", "PUB00007069", "PUB00007070" ]

[ "1872840", "11297922", "11290319", "11114498" ]

[ "The primary structure of rat ribosomal protein S18.", "Atomic structures at last: the ribosome in 2000.", "The ribosome in focus.", "The end of the beginning: structural studies of ribosomal proteins." ]

[ 1991, 2001, 2001, 2000 ]

4

[ "IPR001892" ]

[]

1

0

1

[ "Archaea", "Eukaryota", "ecological metagenomes" ]

[ 774, 4, 12 ]

3

[]

0

true

Family

Small ribosomal subunit protein uS13, archaea

Ribosomal_uS13_arc

1

IPR019978

19,978

Small ribosomal subunit protein uS17, archaeal

Ribosomal_uS17_archaeal

Family

807

false

This entry represents archaeal ribosomal uS17 proteins. The ribosomal proteins catalyse ribosome assembly and stabilise the rRNA, tuning the structure of the ribosome for optimal function. Evidence suggests that, in prokaryotes, the peptidyl transferase reaction is performed by the large subunit 23S rRNA, whereas prote...

[ "GO:0003735", "GO:0006412", "GO:0005840" ]

[ "structural constituent of ribosome", "translation", "ribosome" ]

[ "molecular_function", "biological_process", "cellular_component" ]

3

[ "HAMAP" ]

[ "MF_01345_A" ]

[ "Ribosomal_uS17_A" ]

[ 807 ]

1

[]

0

[ "4v4n", "4v6u", "5jb3", "5jbh", "6skf", "6skg", "6sw9", "6swc", "6swd", "6th6", "6tmf", "7zag", "7zah", "7zai", "7zhg", "8hkx", "8hky", "8hkz", "8hl1", "8hl2", "8hl3", "8hl4", "8hl5", "8wkp", "8wq2", "8wq4", "9e71", "9e7f", "9fhl", "9fny", "9fnz", "9fo0"...

43

[ "PUB00003381", "PUB00004907" ]

[ "9281425", "9371771" ]

[ "A new model for the three-dimensional folding of Escherichia coli 16 S ribosomal RNA. II. The RNA-protein interaction data.", "Proteins on ribosome surface: measurements of protein exposure by hot tritium bombardment technique." ]

[ 1997, 1997 ]

2

[ "IPR028333" ]

[]

1

0

1

[ "Archaea", "unclassified sequences" ]

[ 792, 15 ]

2

[]

0

true

Family

Small ribosomal subunit protein uS17, archaeal

Ribosomal_uS17_archaeal

1

IPR019979

19,979

Small ribosomal subunit protein uS17, conserved site

Ribosomal_uS17_CS

Conserved_site

24,072

false

The ribosomal proteins catalyse ribosome assembly and stabilise the rRNA, tuning the structure of the ribosome for optimal function. Evidence suggests that, in prokaryotes, the peptidyl transferase reaction is performed by the large subunit 23S rRNA, whereas proteins probably have a greater role in eukaryotic ribosomes...

[ "GO:0003735", "GO:0006412", "GO:0005840" ]

[ "structural constituent of ribosome", "translation", "ribosome" ]

[ "molecular_function", "biological_process", "cellular_component" ]

3

[ "PROSITE" ]

[ "PS00056" ]

[ "RIBOSOMAL_S17" ]

[ 24072 ]

1

[ "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOM...

[ "R-BTA-156827", "R-BTA-1799339", "R-BTA-6791226", "R-BTA-72649", "R-BTA-72689", "R-BTA-72695", "R-BTA-72702", "R-BTA-72706", "R-BTA-975956", "R-BTA-975957", "R-DDI-156827", "R-DDI-1799339", "R-DDI-72689", "R-DDI-72695", "R-DDI-72702", "R-DDI-72706", "R-DDI-975956", "R-DDI-975957", ...

[ "REACTOME:R-BTA-156827", "REACTOME:R-BTA-1799339", "REACTOME:R-BTA-6791226", "REACTOME:R-BTA-72649", "REACTOME:R-BTA-72689", "REACTOME:R-BTA-72695", "REACTOME:R-BTA-72702", "REACTOME:R-BTA-72706", "REACTOME:R-BTA-975956", "REACTOME:R-BTA-975957", "REACTOME:R-DDI-156827", "REACTOME:R-DDI-179933...

83

[ "1eg0", "1fjg", "1hnw", "1hnx", "1hnz", "1hr0", "1i94", "1i95", "1i96", "1i97", "1ibk", "1ibl", "1ibm", "1j5e", "1jgo", "1jgp", "1jgq", "1ml5", "1n32", "1n33", "1n34", "1n36", "1qd7", "1rip", "1vvj", "1vy4", "1vy5", "1vy6", "1vy7", "1xmo", "1xmq", "1xnq"...

1,779

[ "PUB00003381", "PUB00004907", "PUB00007068", "PUB00007069", "PUB00007070" ]

[ "9281425", "9371771", "11297922", "11290319", "11114498" ]

[ "A new model for the three-dimensional folding of Escherichia coli 16 S ribosomal RNA. II. The RNA-protein interaction data.", "Proteins on ribosome surface: measurements of protein exposure by hot tritium bombardment technique.", "Atomic structures at last: the ribosome in 2000.", "The ribosome in focus.", ...

[ 1997, 1997, 2001, 2001, 2000 ]

5

[]

0

null

[ "Archaea", "Bacteria", "Eukaryota", "unclassified sequences" ]

[ 684, 17262, 5844, 282 ]

4

[ "Arabidopsis thaliana", "Caenorhabditis elegans", "Danio rerio", "Drosophila melanogaster", "Escherichia coli (strain K12)", "Homo sapiens", "Mus musculus", "Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987)", "Oryza sativa subsp. japonica", "Rattus norvegicus",...

[ 12, 1, 1, 11, 1, 2, 6, 1, 10, 6, 2, 2, 8 ]

13

true

Conserved_site

Small ribosomal subunit protein uS17, conserved site

Ribosomal_uS17_CS

4

IPR019980

19,980

Small ribosomal subunit protein uS13, bacteria

Ribosomal_uS13_bact

Family

24,334

false

This entry represents bacterial uS13 and some, but not all instances of chloroplast and mitochondrial uS13 as well. Small ribosomal subunit protein uS13, previously known as Ribosomal protein S13, is one of the proteins from the small ribosomal subunit. In Escherichia coli, it is known to be involved in binding fMet-tR...

[ "GO:0003723", "GO:0003735", "GO:0006412", "GO:0005840" ]

[ "RNA binding", "structural constituent of ribosome", "translation", "ribosome" ]

[ "molecular_function", "molecular_function", "biological_process", "cellular_component" ]

4

[ "NCBIFAM" ]

[ "TIGR03631" ]

[ "uS13_bact" ]

[ 24334 ]

1

[]

0

[ "1fjg", "1hnw", "1hnx", "1hnz", "1hr0", "1i94", "1i95", "1i96", "1i97", "1ibk", "1ibl", "1ibm", "1j5e", "1jgo", "1jgp", "1jgq", "1mj1", "1ml5", "1n32", "1n33", "1n34", "1n36", "1vvj", "1vy4", "1vy5", "1vy6", "1vy7", "1xmo", "1xmq", "1xnq", "1xnr", "2e5l"...

1,159

[ "PUB00000201", "PUB00007068", "PUB00007069", "PUB00007070" ]

[ "1872840", "11297922", "11290319", "11114498" ]

[ "The primary structure of rat ribosomal protein S18.", "Atomic structures at last: the ribosome in 2000.", "The ribosome in focus.", "The end of the beginning: structural studies of ribosomal proteins." ]

[ 1991, 2001, 2001, 2000 ]

4

[ "IPR001892" ]

[]

1

0

1

[ "Bacteria", "Eukaryota", "candidate division MSBL1 archaeon SCGC-AAA382N08", "unclassified sequences" ]

[ 22955, 985, 1, 393 ]

4

[ "Arabidopsis thaliana", "Escherichia coli (strain K12)", "Oryza sativa subsp. japonica", "Zea mays" ]

[ 2, 1, 2, 3 ]

4

true

Family

Small ribosomal subunit protein uS13, bacteria

Ribosomal_uS13_bact

3

IPR019982

19,982

Proteasome alpha subunit, archaeal

Proteasome_asu_arc

Family

1,073

false

This entry represents the alpha subunit of the archaeal proteasome (MEROPS identifier T01.970). This protein has so far been found in all completely sequenced archaeal genomes and is occasionally duplicated. The two different alpha subunits of Haloferax volcanii may have distinct physiological roles [ ]. The proteasome...

[ "GO:0004298", "GO:0030163", "GO:0005839" ]

[ "threonine-type endopeptidase activity", "protein catabolic process", "proteasome core complex" ]

[ "molecular_function", "biological_process", "cellular_component" ]

3

[ "HAMAP", "NCBIFAM", "CDD" ]

[ "MF_00289_A", "TIGR03633", "cd03756" ]

[ "Proteasome_A_A", "arc_protsome_A", "proteasome_alpha_archeal" ]

[ 1021, 1026, 842 ]

3

[]

0

[ "1j2p", "1j2q", "1pma", "1ya7", "1yar", "1yau", "2ku1", "2ku2", "3c91", "3c92", "3h4p", "3ipm", "3j9i", "3jrm", "3jse", "3jtl", "5vy3", "5vy4", "6bdf", "6he5", "6he7", "6he8", "6he9", "6hea", "6hec", "6hed", "6utf", "6utg", "6uth", "6uti", "6utj", "6z46"...

36

[ "PUB00000148", "PUB00000524", "PUB00001329", "PUB00004123", "PUB00005460", "PUB00030848", "PUB00070172", "PUB00080992" ]

[ "2643381", "7682410", "7697118", "1317508", "8882582", "9087403", "10482525", "2535672" ]

[ "The multicatalytic proteinase of mammalian cells.", "Proteasomes: multicatalytic proteinase complexes.", "Proteasomes. Multicatalytic proteinase complexes.", "Proteolysis, proteasomes and antigen presentation.", "Proteasomes: destruction as a programme.", "Structure of 20S proteasome from yeast at 2.4 A ...

[ 1989, 1993, 1993, 1992, 1996, 1997, 1999, 1989 ]

8

[ "IPR023332" ]

[]

1

0

1

[ "Archaea", "Cylicocyclus nassatus", "Desulfofervidus auxilii", "unclassified sequences" ]

[ 1057, 1, 1, 14 ]

4

[]

0

true

Family

Proteasome alpha subunit, archaeal

Proteasome_asu_arc

5

IPR019983

19,983

Peptidase T1A, proteasome beta-subunit, archaeal

Pept_T1A_Psome_bsu_arc

Family

1,300

false

This entry includes the beta subunit of the archaean proteasome (MEROPS identifier T01.002). The archaean proteasome consists of four stacked rings each of which contains a homoheptamer of either alpha or beta components, so that the rings are stacked in the order alpha, beta, beta, alpha. Alpha and beta subunits are h...

[ "GO:0004175", "GO:0030163", "GO:0005839" ]

[ "endopeptidase activity", "protein catabolic process", "proteasome core complex" ]

[ "molecular_function", "biological_process", "cellular_component" ]

3

[ "HAMAP", "NCBIFAM", "CDD" ]

[ "MF_02113_A", "TIGR03634", "cd03764" ]

[ "Proteasome_B_A", "arc_protsome_B", "proteasome_beta_archeal" ]

[ 1291, 1030, 333 ]

3

[ "EC" ]

[ "3.4.25.1" ]

[ "EC:3.4.25.1" ]

1

[ "1j2q", "1pma", "1ya7", "1yar", "1yau", "3c91", "3c92", "3h4p", "3ipm", "3j9i", "3jrm", "3jse", "3jtl", "5vy3", "5vy4", "6bdf", "6he5", "6he7", "6he8", "6he9", "6hea", "6hec", "6hed", "6utf", "6utg", "6uth", "6uti", "6utj", "6z46", "8f66", "8f6a", "8f7k"...

33

[ "PUB00000148", "PUB00000524", "PUB00001329", "PUB00004123", "PUB00005460", "PUB00029908", "PUB00030848", "PUB00065662", "PUB00083436" ]

[ "2643381", "7682410", "7697118", "1317508", "8882582", "7725097", "9087403", "22341445", "7725107" ]

[ "The multicatalytic proteinase of mammalian cells.", "Proteasomes: multicatalytic proteinase complexes.", "Proteasomes. Multicatalytic proteinase complexes.", "Proteolysis, proteasomes and antigen presentation.", "Proteasomes: destruction as a programme.", "Crystal structure of the 20S proteasome from the...

[ 1989, 1993, 1993, 1992, 1996, 1995, 1997, 2012, 1995 ]

9

[ "IPR000243" ]

[]

1

0

1

[ "Archaea", "Bacteria", "ecological metagenomes" ]

[ 1268, 2, 30 ]

3

[]

0

true

Family

Peptidase T1A, proteasome beta-subunit, archaeal

Pept_T1A_Psome_bsu_arc

7

IPR019984

19,984

Small ribosomal subunit protein uS17, bacteria/chloroplast

Ribosomal_uS17_bact/chlr

Family

25,564

false

This entry represents ribosomal S17 proteins from bacteria and chloroplasts [ ]. The ribosomal proteins catalyse ribosome assembly and stabilise the rRNA, tuning the structure of the ribosome for optimal function. Evidence suggests that, in prokaryotes, the peptidyl transferase reaction is performed by the large subuni...

[ "GO:0003735", "GO:0006412", "GO:0005840" ]

[ "structural constituent of ribosome", "translation", "ribosome" ]

[ "molecular_function", "biological_process", "cellular_component" ]

3

[ "HAMAP", "NCBIFAM", "NCBIFAM" ]

[ "MF_01345_B", "NF004123", "TIGR03635" ]

[ "Ribosomal_uS17_B", "PRK05610.1", "uS17_bact" ]

[ 25137, 25552, 24402 ]

3

[]

0

[ "1eg0", "1fjg", "1hnw", "1hnx", "1hnz", "1hr0", "1i94", "1i95", "1i96", "1i97", "1ibk", "1ibl", "1ibm", "1j5e", "1jgo", "1jgp", "1jgq", "1ml5", "1n32", "1n33", "1n34", "1n36", "1qd7", "1rip", "1vvj", "1vy4", "1vy5", "1vy6", "1vy7", "1xmo", "1xmq", "1xnq"...

1,178

[ "PUB00002600", "PUB00003381", "PUB00004907", "PUB00037521", "PUB00104199", "PUB00104200" ]

[ "2406240", "9281425", "9371771", "8251502", "10561594", "8608120" ]

[ "Plant cytosolic ribosomal protein S11 and chloroplast ribosomal protein CS17. Their primary structures and evolutionary relationships.", "A new model for the three-dimensional folding of Escherichia coli 16 S ribosomal RNA. II. The RNA-protein interaction data.", "Proteins on ribosome surface: measurements of ...

[ 1990, 1997, 1997, 1993, 1999, 1996 ]

6

[ "IPR000266" ]

[]

1

0

1

[ "Archaea", "Bacteria", "Eukaryota", "unclassified sequences" ]

[ 12, 23220, 1936, 396 ]

4

[ "Arabidopsis thaliana", "Escherichia coli (strain K12)", "Oryza sativa subsp. japonica", "Zea mays" ]

[ 10, 1, 3, 8 ]

4

true

Family

Small ribosomal subunit protein uS17, bacteria/chloroplast

Ribosomal_uS17_bact/chlr

4

IPR019985

19,985

Large ribosomal subunit protein uL23

Ribosomal_uL23

Family

4,236

false

This entry represent archaeal and eukaryotic ribosomal uL23 proteins. Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in...

[ "GO:0003735", "GO:0006412", "GO:0005840" ]

[ "structural constituent of ribosome", "translation", "ribosome" ]

[ "molecular_function", "biological_process", "cellular_component" ]

3

[ "NCBIFAM" ]

[ "TIGR03636" ]

[ "uL23_arch" ]

[ 4236 ]

1

[ "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOM...

[ "R-CEL-156827", "R-CEL-1799339", "R-CEL-72689", "R-CEL-72706", "R-CEL-975956", "R-CEL-975957", "R-DDI-156827", "R-DDI-1799339", "R-DDI-72689", "R-DDI-72706", "R-DDI-975956", "R-DDI-975957", "R-HSA-156827", "R-HSA-156902", "R-HSA-1799339", "R-HSA-192823", "R-HSA-2408557", "R-HSA-679...

[ "REACTOME:R-CEL-156827", "REACTOME:R-CEL-1799339", "REACTOME:R-CEL-72689", "REACTOME:R-CEL-72706", "REACTOME:R-CEL-975956", "REACTOME:R-CEL-975957", "REACTOME:R-DDI-156827", "REACTOME:R-DDI-1799339", "REACTOME:R-DDI-72689", "REACTOME:R-DDI-72706", "REACTOME:R-DDI-975956", "REACTOME:R-DDI-97595...

32

[ "1ffk", "1jj2", "1k73", "1k8a", "1k9m", "1kc8", "1kd1", "1kqs", "1m1k", "1m90", "1ml5", "1n8r", "1nji", "1q7y", "1q81", "1q82", "1q86", "1qvf", "1qvg", "1s72", "1vq4", "1vq5", "1vq6", "1vq7", "1vq8", "1vq9", "1vqk", "1vql", "1vqm", "1vqn", "1vqo", "1vqp"...

363

[ "PUB00007068", "PUB00007069", "PUB00007070" ]

[ "11297922", "11290319", "11114498" ]

[ "Atomic structures at last: the ribosome in 2000.", "The ribosome in focus.", "The end of the beginning: structural studies of ribosomal proteins." ]

[ 2001, 2001, 2000 ]

3

[ "IPR013025" ]

[]

1

0

1

[ "Archaea", "Bacteria", "Eukaryota", "ecological metagenomes" ]

[ 759, 4, 3462, 11 ]

4

[ "Arabidopsis thaliana", "Caenorhabditis elegans", "Danio rerio", "Homo sapiens", "Mus musculus", "Oryza sativa subsp. japonica", "Rattus norvegicus", "Zea mays" ]

[ 8, 1, 2, 6, 4, 5, 7, 20 ]

8

true

Family

Large ribosomal subunit protein uL23

Ribosomal_uL23

3

IPR019986

19,986

Protein YloV-like

YloV-like

Family

7,994

false

This entry represents a protein family of bacterial sequences that includes Protein YloV from Bacillus subtilis and a number of proteins of unknown function. YloV is a metal-dependent endoribonuclease that catalyses the cleavage of single-stranded RNA, preferentially at U residues [ ]. Most members of this family that ...

[]

0

[ "NCBIFAM" ]

[ "TIGR03599" ]

[ "YloV" ]

[ 7994 ]

1

[]

0

[ "7w7h" ]

1

[ "PUB00151088" ]

[ "34815358" ]

[ "Discovery and initial characterization of YloC, a novel endoribonuclease in <i>Bacillus subtilis</i>." ]

[ 2022 ]

1

[]

0

null

[ "Bacteria", "Metazoa", "Thermoproteota archaeon", "unclassified sequences" ]

[ 7912, 2, 1, 79 ]

4

[]

0

true

Family

Protein YloV-like

YloV-like

2

IPR019987

19,987

GTP-binding protein, ribosome biogenesis, YsxC

GTP-bd_ribosome_bio_YsxC

Family

22,430

false

This entry represents a family of GTPases associated with ribosome biogenesis, as typified by YsxC from Bacillus subtilis [ ]. This family is widely distributed among bacteria, being found in around eighty percent of currently sequenced bacterial genomes. The proteins are commonly annotated as EngB based on their homol...

[ "GO:0005525" ]

[ "GTP binding" ]

[ "molecular_function" ]

1

[ "HAMAP", "NCBIFAM" ]

[ "MF_00321", "TIGR03598" ]

[ "GTPase_EngB", "GTPase_YsxC" ]

[ 21172, 21783 ]

2

[ "GP" ]

[ "GenProp0802" ]

[ "GP:GenProp0802" ]

1

[ "1pui", "1sul", "1svi", "1svw", "2cxx", "3pqc", "3pr1", "4dhe", "5ucv", "7szs", "8qua", "9p38" ]

12

[ "PUB00045453" ]

[ "17981968" ]

[ "Interactions of an essential Bacillus subtilis GTPase, YsxC, with ribosomes." ]

[ 2008 ]

1

[]

0

null

[ "Bacteria", "Eukaryota", "Methanobacteriati", "unclassified sequences" ]

[ 18069, 3613, 490, 258 ]

4

[ "Arabidopsis thaliana", "Danio rerio", "Escherichia coli (strain K12)", "Homo sapiens", "Mus musculus", "Oryza sativa subsp. japonica", "Rattus norvegicus", "Zea mays" ]

[ 14, 2, 1, 2, 1, 8, 2, 8 ]

8

true

Family

GTP-binding protein, ribosome biogenesis, YsxC

GTP-bd_ribosome_bio_YsxC

6

IPR019989

19,989

CRISPR-associated protein Cas8a1/Csx13, Myxan subtype, N-terminal

CRISPR-assoc_Csx13_N

Domain

124

false

This entry represents the N-terminal domain of DevT proteins. This domain is found predominantly in Cyanobacteria, with representatives also in Planctomycetota and Bacillota. The specific function of this N-terminal domain remains to be determined. DevT is a CRISPR-associated protein Cas8a1/Csx13 that functions in the ...

[ "GO:0051607" ]

[ "defense response to virus" ]

[ "biological_process" ]

1

[ "PFAM", "NCBIFAM", "CDD" ]

[ "PF27372", "TIGR03485", "cd09713" ]

[ "DevT_N", "cas_csx13_N", "Cas8c_I-C" ]

[ 118, 121, 19 ]

3

[ "GP", "GP" ]

[ "GenProp0021", "GenProp0922" ]

[ "GP:GenProp0021", "GP:GenProp0922" ]

2

[ "8fcj", "8fcu", "8fd2", "8fd3", "8ff4", "8ff5" ]

6

[ "PUB00043289", "PUB00067501" ]

[ "17369305", "11872704" ]

[ "Regulation of dev, an operon that includes genes essential for Myxococcus xanthus development and CRISPR-associated genes and repeats.", "The DevT protein stimulates synthesis of FruA, a signal transduction protein required for fruiting body morphogenesis in Myxococcus xanthus." ]

[ 2007, 2002 ]

2

[]

0

null

[ "Bacteria" ]

[ 124 ]

1

[]

0

true

Domain

CRISPR-associated protein Cas8a1/Csx13, Myxan subtype, N-terminal

CRISPR-assoc_Csx13_N

2

IPR019991

19,991

GTP-binding protein, ribosome biogenesis

GTP-bd_ribosome_bgen

Family

8,753

false

This entry represents a family GTP-binding proteins involved in ribosome biogenesis, typified by the essential Bacillus subtilis protein YlqF [ ]. They are related to Era, EngA, and other GTPases involved in ribosome biogenesis, but are circularly permuted. This family is not universal, and is not present in Escherichi...

[]

0

[ "NCBIFAM" ]

[ "TIGR03596" ]

[ "GTPase_YlqF" ]

[ 8753 ]

1

[ "GP" ]

[ "GenProp0802" ]

[ "GP:GenProp0802" ]

1

[ "1puj", "3cnl", "3cnn", "3cno", "6g0z", "6g12", "6g14", "6g15", "6ppk", "7o9k", "7o9m", "7pd3", "8pk0", "8qsj", "9bsl", "9bss" ]

16

[ "PUB00045451" ]

[ "17613524" ]

[ "Isolation and characterization of a dominant negative mutant of Bacillus subtilis GTP-binding protein, YlqF, essential for biogenesis and maintenance of the 50 S ribosomal subunit." ]

[ 2007 ]

1

[ "IPR016478" ]

[]

1

0

1

[ "Bacteria", "Eukaryota", "metagenomes" ]

[ 7939, 755, 59 ]

3

[ "Arabidopsis thaliana", "Homo sapiens", "Oryza sativa subsp. japonica", "Zea mays" ]

[ 3, 1, 2, 6 ]

4

true

Family

GTP-binding protein, ribosome biogenesis

GTP-bd_ribosome_bgen

4

IPR019992

19,992

Mycoides cluster lipoprotein, LppA/p72

Mycoides_lipoprot_LppA/p72

Family

75

false

Members of this protein family occur in Mycoplasma mycoides, Mycoplasma hyopneumoniae, and related Mycoplasmas in small paralogous families that may also include truncated forms and/or pseudogenes. Members are predicted lipoproteins with a conserved signal peptidase II processing and lipid attachment site [ , ]. Note t...

[]

0

[ "NCBIFAM" ]

[ "TIGR03490" ]

[ "Mycoplas_LppA" ]

[ 75 ]

1

[]

0

[]

0

[ "PUB00045470", "PUB00045471" ]

[ "9004514", "10512041" ]

[ "Characterization of the gene for an immunodominant 72 kDa lipoprotein of Mycoplasma mycoides subsp. mycoides small colony type.", "Comparative analysis of the lppA locus in Mycoplasma capricolum subsp. capricolum and Mycoplasma capricolum subsp. capripneumoniae." ]

[ 1996, 1999 ]

2

[]

0

null

[ "Mycoplasmatota" ]

[ 75 ]

1

[]

0

true

Family

Mycoides cluster lipoprotein, LppA/p72

Mycoides_lipoprot_LppA/p72

4

IPR019993

19,993

RecB family nuclease, TM0106, putative

RecB_nuclease_TM0106_put

Family

3,479

false

Members of this uncharacterised protein family are found broadly but sporadically among bacteria. The N-terminal region is homologous to the Cas4 protein of CRISPR systems, although this protein family shows no signs of association with CRISPR repeats.

[]

0

[ "NCBIFAM" ]

[ "TIGR03491" ]

[ "" ]

[ 3479 ]

1

[]

0

[]

0

[]

0

[]

0

null

[ "Archaea", "Bacteria", "Eukaryota", "ecological metagenomes" ]

[ 4, 3404, 23, 48 ]

4

[]

0

true

Family

RecB family nuclease, TM0106, putative

RecB_nuclease_TM0106_put

4

IPR019994

19,994

Lipid-A-disaccharide synthase-related protein, putative

Lipid-A-disac_synthase-rel_put

Family

785

false

This entry represents a family of proteins mainly found in cyanobacterial species, in one or two copies. These proteins show some sequence similarity, especially toward the C terminus, to lipid-A-disaccharide synthase ( or ). The function is unknown.

[]

0

[ "PANTHER", "NCBIFAM" ]

[ "PTHR39517", "TIGR03492" ]

[ "", "" ]

[ 785, 672 ]

2

[]

0

[]

0

[]

0

[]

0

null

[ "Bacteria", "Eukaryota", "ecological metagenomes" ]

[ 742, 35, 8 ]

3

[]

0

true

Family

Lipid-A-disaccharide synthase-related protein, putative

Lipid-A-disac_synthase-rel_put

3

IPR019995

19,995

Cellulose biosynthesis, BcsF/YhjT

Cellulose_BcsF/YhjT

Family

895

false

Members of this protein family are found invariably together with genes of bacterial cellulose biosynthesis, and are presumed to be involved in the process [ , , , ]. Members average about 63 amino acids in length and are not uncharacterised. The gene has been designated both YhjT and BcsF (bacterial cellulose synthesi...

[]

0

[ "PFAM", "NCBIFAM" ]

[ "PF11120", "TIGR03493" ]

[ "CBP_BcsF", "cellullose_BcsF" ]

[ 895, 724 ]

2

[ "GP" ]

[ "GenProp0658" ]

[ "GP:GenProp0658" ]

1

[ "9fnn", "9fo7", "9fp0", "9fp2" ]

4

[ "PUB00042856", "PUB00075887", "PUB00086869", "PUB00100649" ]

[ "11929533", "26077867", "24097954", "32788377" ]

[ "Genetic analysis of Salmonella enteritidis biofilm formation: critical role of cellulose.", "Bacterial cellulose biosynthesis: diversity of operons, subunits, products, and functions.", "Cellulose as an architectural element in spatially structured Escherichia coli biofilms.", "Structure and Multitasking of ...

[ 2002, 2015, 2013, 2020 ]

4

[]

0

null

[ "Pseudomonadota", "termite gut metagenome" ]

[ 892, 3 ]

2

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Cellulose biosynthesis, BcsF/YhjT

Cellulose_BcsF/YhjT

1

IPR019996

19,996

Salicylate synthase

Salicylate_synthase

Family

1,434

false

Members of this protein family are salicylate synthases, bifunctional enzymes that make salicylate, in two steps, from chorismate. Members are homologous to anthranilate synthase component I from Trp biosynthesis. Members typically are found in gene regions associated with siderophore or other secondary metabolite bios...

[ "GO:0008909", "GO:0016833" ]

[ "isochorismate synthase activity", "oxo-acid-lyase activity" ]

[ "molecular_function", "molecular_function" ]

2

[ "NCBIFAM" ]

[ "TIGR03494" ]

[ "salicyl_syn" ]

[ 1434 ]

1

[ "EC", "EC", "EC", "METACYC", "METACYC", "METACYC", "METACYC", "METACYC", "METACYC", "METACYC", "METACYC", "METACYC" ]

[ "4.2.99.21", "5.4.4.2", "5.4.99.5", "PWY-3461", "PWY-3462", "PWY-5837", "PWY-5901", "PWY-6120", "PWY-6406", "PWY-6627", "PWY-7626", "PWY-8321" ]

[ "EC:4.2.99.21", "EC:5.4.4.2", "EC:5.4.99.5", "METACYC:PWY-3461", "METACYC:PWY-3462", "METACYC:PWY-5837", "METACYC:PWY-5901", "METACYC:PWY-6120", "METACYC:PWY-6406", "METACYC:PWY-6627", "METACYC:PWY-7626", "METACYC:PWY-8321" ]

12

[ "2fn0", "2fn1", "2g5f", "2i6y", "3log", "3rv6", "3rv7", "3rv8", "3rv9", "3st6", "3veh", "5jy9", "6za4", "6za5", "6za6", "8qc4", "8qij", "8qn5" ]

18

[ "PUB00040743", "PUB00045469" ]

[ "16434053", "16030197" ]

[ "Crystal structures of Yersinia enterocolitica salicylate synthase and its complex with the reaction products salicylate and pyruvate.", "Salicylate biosynthesis: overexpression, purification, and characterization of Irp9, a bifunctional salicylate synthase from Yersinia enterocolitica." ]

[ 2006, 2005 ]

2

[]

0

null

[ "Bacteria", "Opisthokonta", "metagenomes" ]

[ 1262, 168, 4 ]

3

[]

0

true

Family

Salicylate synthase

Salicylate_synthase

5

IPR019998

19,998

Membrane insertase YidC

Membr_insert_YidC

Family

14,157

false

YidC is required for the insertion of integral membrane proteins into the membrane. It may also be involved in protein secretion processes [ ].

[ "GO:0032977", "GO:0016020" ]

[ "membrane insertase activity", "membrane" ]

[ "molecular_function", "cellular_component" ]

2

[ "HAMAP" ]

[ "MF_01810" ]

[ "YidC_type1" ]

[ 14157 ]

1

[ "GP" ]

[ "GenProp1132" ]

[ "GP:GenProp1132" ]

1

[ "3wvf", "4utq", "5m5h", "5mg3", "5y83", "6al2" ]

6

[ "PUB00088303" ]

[ "29295859" ]

[ "Structure of YidC from Thermotoga maritima and its implications for YidC-mediated membrane protein insertion." ]

[ 2018 ]

1

[ "IPR001708" ]

[]

1

0

1

[ "Bacteria", "Eukaryota", "unclassified sequences" ]

[ 13911, 22, 224 ]

3

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Membrane insertase YidC

Membr_insert_YidC

3

IPR019999

19,999

Anthranilate synthase component I-like

Anth_synth_I-like

Family

58,600

false

This entry represents the anthranilate synthase component 1 protein and its homologues, including aminodeoxychorismate synthase component 1 , 2-amino-4-deoxychorismate synthase and isochorismate synthase/isochorismate-pyruvate lyase MbtI . Anthranilate synthase component 1 is a tetramer comprising two copies of compone...

[ "GO:0009058" ]

[ "biosynthetic process" ]

[ "biological_process" ]

1

[ "PRINTS", "PANTHER" ]

[ "PR00095", "PTHR11236" ]

[ "ANTSNTHASEI", "" ]

[ 48683, 57436 ]

2

[ "EC", "METACYC", "METACYC" ]

[ "4.1.3.27", "PWY-5958", "PWY-6661" ]

[ "EC:4.1.3.27", "METACYC:PWY-5958", "METACYC:PWY-6661" ]

3

[ "1i1q", "1i7q", "1i7s", "1k0e", "1k0g", "1qdl", "2fn0", "2fn1", "2g5f", "2i6y", "3h9m", "3log", "3r74", "3r75", "3r76", "3rv6", "3rv7", "3rv8", "3rv9", "3st6", "3veh", "4grh", "5cwa", "5jy9", "5kck", "6za4", "6za5", "6za6", "7bvd", "7pi1", "7qu9", "8hx6"...

42

[]

0

[]

[ "IPR005256", "IPR005257", "IPR005802", "IPR010112", "IPR010116", "IPR010118" ]

0

6

0

[ "Archaea", "Bacteria", "Eukaryota", "Pandoravirus", "unclassified sequences" ]

[ 1163, 49353, 6994, 7, 1083 ]

5

[ "Arabidopsis thaliana", "Escherichia coli (strain K12)", "Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987)", "Oryza sativa subsp. japonica", "Saccharomyces cerevisiae (strain ATCC 204508 / S288c)", "Schizosaccharomyces pombe (strain 972 / ATCC 24843)", "Zea mays" ]

[ 21, 2, 3, 13, 2, 2, 28 ]

7

true

Family

Anthranilate synthase component I-like

Anth_synth_I-like

1

IPR020000

20,000

Bacteriophage P2, LysB

Phage_P2_LysB

Family

1,548

false

This entry represents LysB from Bacteriophage P2 [ ], also known as Probable spanin, inner membrane subunit, and similar sequences from taile bacteriophages and proteobacterial prophages. Members of this protein family are Rz-like phage lysis system spanin subunits of the inner membrane (i-spanin). Similar systems, wit...

[]

0

[ "NCBIFAM" ]

[ "TIGR03495" ]

[ "phage_LysB" ]

[ 1548 ]

1

[]

0

[]

0

[ "PUB00105750", "PUB00106887" ]

[ "17900620", "8051010" ]

[ "Rz/Rz1 lysis gene equivalents in phages of Gram-negative hosts.", "Functions involved in bacteriophage P2-induced host cell lysis and identification of a new tail gene." ]

[ 2007, 1994 ]

2

[]

0

null

[ "Caudoviricetes", "Pseudomonadota", "metagenomes" ]

[ 83, 1461, 4 ]

3

[]

0

true

Family

Bacteriophage P2, LysB

Phage_P2_LysB

3

IPR020003

20,003

ATPase, alpha/beta subunit, nucleotide-binding domain, active site

ATPase_a/bsu_AS

Active_site

135,104

false

This entry represents a 10 amino acid region that is essential for catalysis. The signature pattern contains two highly conserved serines. The first serine seems to be important for catalysis - in the ATPase alpha-chain at least - as its mutagenesis causes catalytic impairment. Transmembrane ATPases are membrane-bound ...

[ "GO:0005524" ]

[ "ATP binding" ]

[ "molecular_function" ]

1

[ "PROSITE" ]

[ "PS00152" ]

[ "ATPASE_ALPHA_BETA" ]

[ 135104 ]

1

[ "EC", "METACYC", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "...

[ "7.1.2.2", "PWY-7980", "R-BTA-1222556", "R-BTA-77387", "R-BTA-917977", "R-BTA-9639288", "R-BTA-983712", "R-CEL-1222556", "R-CEL-1268020", "R-CEL-163210", "R-CEL-77387", "R-CEL-8949613", "R-CEL-917977", "R-CEL-9639288", "R-CEL-983712", "R-CEL-9837999", "R-CFA-1268020", "R-CFA-163210...

[ "EC:7.1.2.2", "METACYC:PWY-7980", "REACTOME:R-BTA-1222556", "REACTOME:R-BTA-77387", "REACTOME:R-BTA-917977", "REACTOME:R-BTA-9639288", "REACTOME:R-BTA-983712", "REACTOME:R-CEL-1222556", "REACTOME:R-CEL-1268020", "REACTOME:R-CEL-163210", "REACTOME:R-CEL-77387", "REACTOME:R-CEL-8949613", "REAC...

79

[ "1bmf", "1cow", "1e1q", "1e1r", "1e79", "1efr", "1fx0", "1h8e", "1h8h", "1kmh", "1mab", "1nbm", "1ohh", "1qo1", "1sky", "1vdz", "1w0j", "1w0k", "2c61", "2ck3", "2dpy", "2f43", "2hld", "2jdi", "2jiz", "2jj1", "2jj2", "2obl", "2obm", "2qe7", "2r9v", "2rkw"...

535

[ "PUB00020603", "PUB00020604", "PUB00068786", "PUB00068787", "PUB00068788", "PUB00068789" ]

[ "15473999", "15078220", "20450191", "18937357", "1385979", "9741106" ]

[ "The evolution of A-, F-, and V-type ATP synthases and ATPases: reversals in function and changes in the H+/ATP coupling ratio.", "Mechanisms of ATPases--a multi-disciplinary approach.", "Regulation and isoform function of the V-ATPases.", "New insights into structure-function relationships between archeal AT...

[ 2004, 2004, 2010, 2008, 1992, 1998 ]

6

[]

0

null

[ "Archaea", "Bacteria", "Eukaryota", "Viruses", "unclassified sequences" ]

[ 1747, 67842, 64316, 2, 1197 ]

5

[ "Arabidopsis thaliana", "Caenorhabditis elegans", "Danio rerio", "Drosophila melanogaster", "Escherichia coli (strain K12)", "Homo sapiens", "Mus musculus", "Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987)", "Oryza sativa subsp. japonica", "Rattus norvegicus",...

[ 44, 5, 8, 17, 3, 21, 10, 4, 41, 23, 4, 4, 59 ]

13

true

Active_site

ATPase, alpha/beta subunit, nucleotide-binding domain, active site

ATPase_a/bsu_AS

3

IPR020004

20,004

Bifunctional UDP-N-acetylglucosamine 2-epimerase/N-acetylmannosamine kinase

UDP-GlcNAc_Epase

Family

4,696

false

This entry represents a protein that catalyzes the combined epimerization and UDP-hydrolysis of UDP-N-acetylglucosamine to N-acetylmannosamine [ ]. This is in contrast to the related enzyme WecB ( ) which retains the UDP moiety. NeuC acts in concert with NeuA and NeuB to synthesize CMP-N5-acetyl-neuraminate. NeuC folds...

[ "GO:0004553", "GO:0006047" ]

[ "hydrolase activity, hydrolyzing O-glycosyl compounds", "UDP-N-acetylglucosamine metabolic process" ]

[ "molecular_function", "biological_process" ]

2

[ "NCBIFAM" ]

[ "TIGR03568" ]

[ "NeuC_NnaA" ]

[ 4696 ]

1

[ "EC", "GP", "GP", "METACYC", "METACYC", "REACTOME", "REACTOME", "REACTOME", "REACTOME" ]

[ "3.2.1.183", "GenProp0793", "GenProp1737", "PWY-6138", "PWY-6139", "R-HSA-4085001", "R-HSA-4085011", "R-MMU-4085001", "R-RNO-4085001" ]

[ "EC:3.2.1.183", "GP:GenProp0793", "GP:GenProp1737", "METACYC:PWY-6138", "METACYC:PWY-6139", "REACTOME:R-HSA-4085001", "REACTOME:R-HSA-4085011", "REACTOME:R-MMU-4085001", "REACTOME:R-RNO-4085001" ]

9

[ "4zht", "5xvs", "5zlr", "5zlt" ]

4

[ "PUB00045362", "PUB00151018", "PUB00151019" ]

[ "14729696", "29764940", "26980148" ]

[ "The NeuC protein of Escherichia coli K1 is a UDP N-acetylglucosamine 2-epimerase.", "The tetrameric structure of sialic acid-synthesizing UDP-GlcNAc 2-epimerase from <i>Acinetobacter baumannii</i>: A comparative study with human GNE.", "Mechanism and inhibition of human UDP-GlcNAc 2-epimerase, the key enzyme i...

[ 2004, 2018, 2016 ]

3

[]

0

null

[ "Archaea", "Bacteria", "Eukaryota", "metagenomes" ]

[ 58, 3042, 1511, 85 ]

4

[ "Danio rerio", "Homo sapiens", "Mus musculus", "Rattus norvegicus" ]

[ 5, 5, 6, 7 ]

4

true

Family

Bifunctional UDP-N-acetylglucosamine 2-epimerase/N-acetylmannosamine kinase

UDP-GlcNAc_Epase

4

IPR020005

20,005

Flagellar export ATPase FliI, clade 1

FliI_clade1

Family

5,076

false

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis [ ]. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. ...

[ "GO:0016887", "GO:0044780", "GO:0071973" ]

[ "ATP hydrolysis activity", "bacterial-type flagellum assembly", "bacterial-type flagellum-dependent cell motility" ]

[ "molecular_function", "biological_process", "biological_process" ]

3

[ "NCBIFAM" ]

[ "TIGR03496" ]

[ "FliI_clade1" ]

[ 5076 ]

1

[ "EC", "GP", "METACYC" ]

[ "7.1.2.2", "GenProp0879", "PWY-7980" ]

[ "EC:7.1.2.2", "GP:GenProp0879", "METACYC:PWY-7980" ]

3

[ "2dpy", "5b0o" ]

2

[ "PUB00021013" ]

[ "12813095" ]

[ "The ATPase FliI can interact with the type III flagellar protein export apparatus in the absence of its regulator, FliH." ]

[ 2003 ]

1

[ "IPR005714" ]

[]

1

0

1

[ "Bacteria", "Opisthokonta", "unclassified sequences" ]

[ 5025, 5, 46 ]

3

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Flagellar export ATPase FliI, clade 1

FliI_clade1

1

IPR020006

20,006

Flagellar biosynthesis protein FlhF

FlhF

Family

6,772

false

This entry represents the flagellar biosynthetic protein FlhF. The assembly of flagella is a multi-step process and relies on a complex type III export machinery located in the cytoplasmic membrane. The FlhF protein is essential for the placement and assembly of polar flagella and has been classified as a signal-recogn...

[ "GO:0003924", "GO:0044781" ]

[ "GTPase activity", "bacterial-type flagellum organization" ]

[ "molecular_function", "biological_process" ]

2

[ "NCBIFAM" ]

[ "TIGR03499" ]

[ "FlhF" ]

[ 6772 ]

1

[ "GP" ]

[ "GenProp0886" ]

[ "GP:GenProp0886" ]

1

[ "8r9r" ]

1

[ "PUB00045457", "PUB00045458", "PUB00078323", "PUB00101690", "PUB00101691" ]

[ "17699634", "17660418", "23600726", "15837181", "15546655" ]

[ "The crystal structure of the third signal-recognition particle GTPase FlhF reveals a homodimer with bound GTP.", "FlhF, a signal recognition particle-like GTPase, is involved in the regulation of flagellar arrangement, motility behaviour and protein secretion in Bacillus cereus.", "Spatial and numerical regula...

[ 2007, 2007, 2013, 2005, 2004 ]

5

[]

0

null

[ "Bacteria", "Eukaryota", "unclassified sequences" ]

[ 6692, 4, 76 ]

3

[]

0

true

Family

Flagellar biosynthesis protein FlhF

FlhF

3

IPR020007

20,007

NeuB/NeuA acid synthase

NeuB/NeuA

Family

2,099

false

This entry represents NeuB and NeuA enzymes. The majority of the proteins identified in this entry are observed adjacent to both the NeuA and NeuC genes which together effect the biosynthesis of CMP-N-acetylneuraminate from UDP-N-acetylglucosamine. NeuB is the prokaryotic N-acetylneuraminic acid synthase. It catalyses ...

[]

0

[ "NCBIFAM" ]

[ "TIGR03569" ]

[ "NeuB_NnaB" ]

[ 2099 ]

1

[ "GP" ]

[ "GenProp0793" ]

[ "GP:GenProp0793" ]

1

[]

0

[ "PUB00007383", "PUB00032527", "PUB00070658", "PUB00070659" ]

[ "10873658", "15516336", "10749855", "15888312" ]

[ "Molecular cloning and expression of the mouse N-acetylneuraminic acid 9-phosphate synthase which does not have deaminoneuraminic acid (KDN) 9-phosphate synthase activity.", "Structural and mechanistic analysis of sialic acid synthase NeuB from Neisseria meningitidis in complex with Mn2+, phosphoenolpyruvate, and...

[ 2000, 2005, 2000, 2005 ]

4

[ "IPR051690" ]

[]

1

0

1

[ "Archaea", "Bacteria", "Diploscapter pachys", "metagenomes" ]

[ 45, 2011, 1, 42 ]

4

[]

0

true

Family

NeuB/NeuA acid synthase

NeuB/NeuA

8

IPR020008

20,008

GlyGly-CTERM domain

GlyGly_CTERM

Domain

2,080

false

This homology domain, GlyGly-CTERM, shares a species distribution with rhombosortase ( ), a subfamily of rhomboid-like intramembrane serine proteases [ ]. It is probably a recognition sequence for protein sorting and then cleavage by rhombosortase. Shewanella species have the largest number of target proteins per genom...

[]

0

[ "NCBIFAM" ]

[ "TIGR03501" ]

[ "GlyGly_CTERM" ]

[ 2080 ]

1

[ "GP" ]

[ "GenProp0778" ]

[ "GP:GenProp0778" ]

1

[]

0

[ "PUB00045468", "PUB00060404" ]

[ "8285681", "22194940" ]

[ "Cloning and sequencing of agaA, a unique agarase 0107 gene from a marine bacterium, Vibrio sp. strain JT0107.", "GlyGly-CTERM and rhombosortase: a C-terminal protein processing signal in a many-to-one pairing with a rhomboid family intramembrane serine protease." ]

[ 1993, 2011 ]

2

[]

0

null

[ "Archaea", "Bacteria", "Eukaryota", "ecological metagenomes" ]

[ 4, 1990, 81, 5 ]

4

[]

0

true

Domain

GlyGly-CTERM domain

GlyGly_CTERM

6

IPR020009

20,009

VolA/Pla-1/cef phospholipase

VolA/Pla-1/cef

Family

780

false

This entry represents a family of extracellular lipoproteins mainly from gammaproteobacteria, including Lysophospholipase VolA from Vibrio cholerae, lipase Pla-1 from Aeromonas hydrophila [ ], and CHO cell elongation factor (cef) from Vibrio hollisae [ ]. VolA (for Vibrio outer membrane lysophospholipase A) functions a...

[]

0

[ "NCBIFAM" ]

[ "TIGR03502" ]

[ "lipase_Pla1_cef" ]

[ 780 ]

1

[]

0

[]

0

[ "PUB00045466", "PUB00045467", "PUB00153449" ]

[ "10417167", "7790052", "23674613" ]

[ "Cloning, sequencing, and role in virulence of two phospholipases (A1 and C) from mesophilic Aeromonas sp. serogroup O:34.", "Purification and characterization of a Chinese hamster ovary cell elongation factor of Vibrio hollisae.", "The outer surface lipoprotein VolA mediates utilization of exogenous lipids by ...

[ 1999, 1995, 2013 ]

3

[]

0

null

[ "Bacteria", "marine sediment metagenome" ]

[ 777, 3 ]

2

[]

0

true

Family

VolA/Pla-1/cef phospholipase

VolA/Pla-1/cef

8

IPR020010

20,010

Conserved hypothetical protein CHP03503

CHP03503

Family

759

false

This set of conserved hypothetical protein has a phylogenetic range that closely matches that of , and has a putative C-terminal protein targeting signal.

[]

0

[ "NCBIFAM" ]

[ "TIGR03503" ]

[ "" ]

[ 759 ]

1

[]

0

[]

0

[]

0

[]

0

null

[ "Bacteria", "marine sediment metagenome" ]

[ 758, 1 ]

2

[]

0

true

Family

Conserved hypothetical protein CHP03503

CHP03503

7

IPR020011

20,011

FimV, C-terminal domain

FimV_C

Domain

4,926

false

This domain is found at the C-terminal in FimV from Pseudomonas aeruginosa, and of TspA of Neisseria meningitidis [ ]. FimV is an inner membrane protein that plays a role in twitching motility, type IV pilus assembly, and type II secretion in bacteria like Pseudomonas aeruginosa. Disruption of FimV blocks twitching mot...

[]

0

[ "NCBIFAM" ]

[ "TIGR03504" ]

[ "FimV_Cterm" ]

[ 4926 ]

1

[]

0

[ "4mal", "4mbq" ]

2

[ "PUB00045459", "PUB00045460" ]

[ "10846211", "10377136" ]

[ "Identification of a novel gene, fimV, involved in twitching motility in Pseudomonas aeruginosa.", "Identification and characterization of TspA, a major CD4(+) T-cell- and B-cell-stimulating Neisseria-specific antigen." ]

[ 2000, 1999 ]

2

[]

0

null

[ "Bacteria", "Eukaryota", "unclassified sequences" ]

[ 4857, 8, 61 ]

3

[]

0

true

Domain

FimV, C-terminal domain

FimV_C

7

IPR020012

20,012

FimV, LysM domain

LysM_FimV

Domain

4,643

false

This entry represents the LysM domain in FimV from Pseudomonas aeruginosa, TspA of Neisseria meningitidis, and related proteins [ ]. FimV is an inner membrane protein that plays a role in twitching motility, type IV pilus assembly, and type II secretion in bacteria like Pseudomonas aeruginosa. Disruption of FimV blocks...

[]

0

[ "NCBIFAM" ]

[ "TIGR03505" ]

[ "FimV_core" ]

[ 4643 ]

1

[]

0

[]

0

[ "PUB00045459", "PUB00045460" ]

[ "10846211", "10377136" ]

[ "Identification of a novel gene, fimV, involved in twitching motility in Pseudomonas aeruginosa.", "Identification and characterization of TspA, a major CD4(+) T-cell- and B-cell-stimulating Neisseria-specific antigen." ]

[ 2000, 1999 ]

2

[ "IPR018392" ]

[]

1

0

1

[ "Bacteria", "Eukaryota", "unclassified sequences" ]

[ 4570, 4, 69 ]

3

[]

0

true

Domain

FimV, LysM domain

LysM_FimV

6

IPR020013

20,013

Flagellar hook-basal body protein, FlgE/F/G

Flagellar_FlgE/F/G

Family

39,441

false

This entry represents three closely related flagellar proteins usually denoted FlgE, FlgF and FlgG. The names have often been mis-assigned, however. Three models, , and , separate the individual forms into three genome-context consistent groups. The major differences between these genes are architectural, with variable...

[]

0

[ "NCBIFAM" ]

[ "TIGR03506" ]

[ "FlgEFG_subfam" ]

[ 39441 ]

1

[]

0

[ "1wlg", "2bgy", "2bgz", "3a69", "5az4", "5jxl", "5npy", "5wrh", "6jf2", "6jzr", "6jzt", "6k3i", "6k9q", "6kfk", "6ndx", "7bin", "7cbm", "7cgb", "7cgo", "7e80", "7e82", "7nvg", "8wk3", "8wki", "8wkk", "8wl2", "8wlh", "8wlp", "8wlq", "8wlt", "8wo5", "8woe"...

39

[]

0

[]

[ "IPR012834", "IPR012835", "IPR012836" ]

0

3

0

[ "Bacteria", "Eukaryota", "Viruses", "unclassified sequences" ]

[ 38898, 73, 2, 468 ]

4

[ "Escherichia coli (strain K12)" ]

[ 3 ]

1

true

Family

Flagellar hook-basal body protein, FlgE/F/G

Flagellar_FlgE/F/G

3

IPR020014

20,014

Decahaem cytochrome, c-type, OmcA/MtrC

Decahaem_cyt-c_OmcA/MtrC

Family

655

false

The protein MtrC (SO_1778) of Shewanella oneidensis MR-1, its homologue MtrF and its paralog OmcA (SO_1779), with which it interacts, are large decahaem proteins, about 900 amino acids in length, involved in the use of manganese [Mn(III/IV)] and iron [Fe(III)] as terminal electron acceptors [ , , , , ]. This entry repr...

[]

0

[ "NCBIFAM" ]

[ "TIGR03507" ]

[ "decahem_SO1788" ]

[ 655 ]

1

[]

0

[ "3pmq", "3ucp", "3ufh", "3ufk", "4lm8", "4lmh", "6qyc", "6r2q", "7o7g", "7qth", "8qbq", "8qbz", "8qc9", "9eov" ]

14

[ "PUB00045465", "PUB00065514", "PUB00151186", "PUB00151187", "PUB00151188" ]

[ "16788180", "21606337", "20550916", "34556577", "32289252" ]

[ "Isolation of a high-affinity functional protein complex between OmcA and MtrC: Two outer membrane decaheme c-type cytochromes of Shewanella oneidensis MR-1.", "Structure of a bacterial cell surface decaheme electron conduit.", "Characterization of the decaheme c-type cytochrome OmcA in solution and on hematite...

[ 2006, 2011, 2010, 2021, 2020 ]

5

[]

0

null

[ "Bacteria", "mine drainage metagenome" ]

[ 654, 1 ]

2

[]

0

true

Family

Decahaem cytochrome, c-type, OmcA/MtrC

Decahaem_cyt-c_OmcA/MtrC

9

IPR020015

20,015

Decaheme cytochrome, c-type, DmsE

Decahaem_cyt-c_DmsE

Family

672

false

Members of this family are small, decahaem c-type cytochromes that are related to DmsE of Shewanella oneidensis MR-1, which has been shown to be part of an anaerobic dimethyl sulphoxide reductase [ ].

[]

0

[ "NCBIFAM" ]

[ "TIGR03508" ]

[ "decahem_SO" ]

[ 672 ]

1

[]

0

[ "6r2q" ]

1

[ "PUB00045464" ]

[ "16537430" ]

[ "Extracellular respiration of dimethyl sulfoxide by Shewanella oneidensis strain MR-1." ]

[ 2006 ]

1

[]

0

null

[ "Bacteria", "unclassified sequences" ]

[ 658, 14 ]

2

[]

0

true

Family

Decaheme cytochrome, c-type, DmsE

Decahaem_cyt-c_DmsE

3

IPR020016

20,016

Decahaem-associated outer membrane protein, MtrB/PioB

Decahaem-assoc_OM_MtrB/PioB

Family

645

false

Members of this protein family are integral proteins of the bacterial outer membrane, associated with multi-haem c-type cytochromes involved in electron transfer [ , ]. The MtrB protein of Shewanella oneidensis MR-1 (SO1776) has been shown to form a complex with 1:1:1 stochiometry with the small, periplasmic decahaem c...

[]

0

[ "PFAM", "NCBIFAM" ]

[ "PF11854", "TIGR03509" ]

[ "MtrB_PioB", "OMP_MtrB_PioB" ]

[ 645, 498 ]

2

[]

0

[ "6r2q" ]

1

[ "PUB00045462", "PUB00045463" ]

[ "17675441", "17189359" ]

[ "Characterization of protein-protein interactions involved in iron reduction by Shewanella oneidensis MR-1.", "The pio operon is essential for phototrophic Fe(II) oxidation in Rhodopseudomonas palustris TIE-1." ]

[ 2007, 2007 ]

2

[]

0

null

[ "Bacteria", "ecological metagenomes" ]

[ 634, 11 ]

2

[]

0

true

Family

Decahaem-associated outer membrane protein, MtrB/PioB

Decahaem-assoc_OM_MtrB/PioB

6

IPR020017

20,017

XapX domain

XapX_domain

Domain

3,887

false

This entry describes an uncharacterised small, hydrophobic protein of about 50 amino acids, known as XapX found between the xapB and xapR genes of the Escherichia coli xanthosine utilization system. It is also found in a number of other small proteins, such as the N-terminal region of proteins modeled by .

[]

0

[ "NCBIFAM" ]

[ "TIGR03510" ]

[ "XapX" ]

[ 3887 ]

1

[]

0

[]

0

[]

0

[]

0

null

[ "Bacteria", "Caudoviricetes", "Halobacteriales", "metagenomes" ]

[ 3686, 5, 189, 7 ]

4

[]

0

true

Domain

XapX domain

XapX_domain

8

IPR020019

20,019

Acyltransferase PglD-like

AcTrfase_PglD-like

Family

9,419

false

This entry represents a family of characterised and putative acyltransferases mainly found in bacteria, including UDP-N-acetylbacillosamine N-acetyltransferase from Campylobacter jejuni (PglD) and UDP-N-acetylbacillosamine N-acetyltransferase from Bacillus subtilis (EpsM). These enzymes catalyse the formation of UDP-N,...

[]

0

[ "NCBIFAM", "CDD" ]

[ "TIGR03570", "cd03360" ]

[ "NeuD_NnaD", "LbH_AT_putative" ]

[ 7957, 9306 ]

2

[ "GP" ]

[ "GenProp0793" ]

[ "GP:GenProp0793" ]

1

[ "2npo", "2vhe", "3bfp", "3bss", "3bsw", "3bsy", "4ea7", "4ea8", "4ea9", "4eaa", "4eab", "4m98", "4m99", "4m9c", "5t2y", "5tyh", "7l7y", "7l7z", "7l81", "7l82", "7txp", "7txq", "7txs" ]

23

[ "PUB00045472", "PUB00045473", "PUB00045474", "PUB00072914", "PUB00072915", "PUB00072916", "PUB00080888", "PUB00106752" ]

[ "7814319", "16490781", "16923886", "18201574", "19448740", "17087520", "15500694", "30314705" ]

[ "Nucleotide sequence and genetic analysis of the neuD and neuB genes in region 2 of the polysialic acid gene cluster of Escherichia coli K1.", "The group B streptococcal sialic acid O-acetyltransferase is encoded by neuD, a conserved component of bacterial sialic acid biosynthetic gene clusters.", "Separate pat...

[ 1995, 2006, 2006, 2008, 2009, 2006, 2004, 2018 ]

8

[]

0

null

[ "Archaea", "Bacteria", "Eukaryota", "Viruses", "unclassified sequences" ]

[ 38, 9198, 13, 21, 149 ]

5

[]

0

true

Family

Acyltransferase PglD-like

AcTrfase_PglD-like

9

IPR020020

20,020

Luciferase-type oxidoreductase

Luciferase-type_oxidoreductase

Family

2,339

false

This entry represents a distinct subgroup among members of the luciferase monooxygenase domain family. The larger family contains both FMN-binding enzymes (luciferase, alkane monooxygenase) and F420-binding enzymes (methylenetetrahydromethanopterin reductase, secondary alcohol dehydrogenase, glucose-6-phosphate dehydro...

[]

0

[ "NCBIFAM" ]

[ "TIGR03571" ]

[ "lucif_BA3436" ]

[ 2339 ]

1

[]

0

[ "2b81" ]

1

[]

0

[]

0

null

[ "Bacteria", "Halobacteriales", "Knufia peltigerae", "metagenomes" ]

[ 2176, 155, 2, 6 ]

4

[]

0

true

Family

Luciferase-type oxidoreductase

Luciferase-type_oxidoreductase

6

IPR020021

20,021

Glycosyl amidation-associated protein, WbuZ

Glycosyl_amidation-assoc_WbuZ

Family

209

false

This entry represents a protein highly similar to the HisF protein, but generally represents the second HisF homologue in the genome where the other is an authentic HisF observed in the context of a complete histidine biosynthesis operon. The similarity between these WbuZ sequences and true HisFs is such that often the...

[ "GO:0016833" ]

[ "oxo-acid-lyase activity" ]

[ "molecular_function" ]

1

[ "NCBIFAM" ]

[ "TIGR03572" ]

[ "WbuZ" ]

[ 209 ]

1

[ "EC", "GP" ]

[ "4.3.2.10", "GenProp0794" ]

[ "EC:4.3.2.10", "GP:GenProp0794" ]

2

[ "4evz" ]

1

[ "PUB00045363", "PUB00045364", "PUB00045365" ]

[ "15629947", "18156256", "16684771" ]

[ "Structural and genetic characterization of enterohemorrhagic Escherichia coli O145 O antigen and development of an O145 serogroup-specific PCR assay.", "lfnA from Pseudomonas aeruginosa O12 and wbuX from Escherichia coli O145 encode membrane-associated proteins and are required for expression of 2,6-dideoxy-2-ac...

[ 2005, 2008, 2006 ]

3

[]

0

null

[ "Bacteria", "Methanobacteriota", "unclassified sequences" ]

[ 199, 3, 7 ]

3

[]

0

true

Family

Glycosyl amidation-associated protein, WbuZ

Glycosyl_amidation-assoc_WbuZ

5

IPR020022

20,022

N-acetyl sugar amidotransferase

N-acetyl_sugar_amidoTrfase

Family

1,907

false

This entry represents an enzyme that has been implicated in the formation of the acetamido moiety (sugar-NC(=NH)CH3) which is found on some exopolysaccharides and is positively charged at neutral pH. The reaction involves ligation of ammonia with a sugar N-acetyl group, displacing water. In Escherichia coli (O145 strai...

[]

0

[ "NCBIFAM" ]

[ "TIGR03573" ]

[ "WbuX" ]

[ 1907 ]

1

[ "GP", "GP" ]

[ "GenProp0794", "GenProp0796" ]

[ "GP:GenProp0794", "GP:GenProp0796" ]

2

[ "8wex" ]

1

[ "PUB00045363", "PUB00045364", "PUB00045365" ]

[ "15629947", "18156256", "16684771" ]

[ "Structural and genetic characterization of enterohemorrhagic Escherichia coli O145 O antigen and development of an O145 serogroup-specific PCR assay.", "lfnA from Pseudomonas aeruginosa O12 and wbuX from Escherichia coli O145 encode membrane-associated proteins and are required for expression of 2,6-dideoxy-2-ac...

[ 2005, 2008, 2006 ]

3

[]

0

null

[ "Archaea", "Bacteria", "Eukaryota", "metagenomes" ]

[ 22, 1776, 5, 104 ]

4

[]

0

true

Family

N-acetyl sugar amidotransferase

N-acetyl_sugar_amidoTrfase

9

IPR020023

20,023

UDP-2,4-diacetamido-2,4,6-trideoxy-beta-L-altropyranose hydrolase

PseG

Family

2,396

false

This protein is found in association with enzymes involved in the biosynthesis of pseudaminic acid, a component of polysaccharide in certain Pseudomonas strains as well as a modification of flagellin in Campylobacter and Helicobacter [ , ].

[]

0

[ "NCBIFAM" ]

[ "TIGR03590" ]

[ "PseG" ]

[ 2396 ]

1

[ "GP" ]

[ "GenProp0796" ]

[ "GP:GenProp0796" ]

1

[ "3hbm", "3hbn" ]

2

[ "PUB00045365", "PUB00054748" ]

[ "16684771", "19483088" ]

[ "Functional characterization of the flagellar glycosylation locus in Campylobacter jejuni 81-176 using a focused metabolomics approach.", "Structural and functional analysis of Campylobacter jejuni PseG: a udp-sugar hydrolase from the pseudaminic acid biosynthetic pathway." ]

[ 2006, 2009 ]

2

[]

0

null

[ "Archaea", "Bacteria", "Rhizophagus irregularis", "unclassified sequences" ]

[ 33, 2335, 1, 27 ]

4

[]

0

true

Family

UDP-2,4-diacetamido-2,4,6-trideoxy-beta-L-altropyranose hydrolase

PseG

7

IPR020024

20,024

L-seryl-tRNA(Sec) kinase, archaea

L-seryl-tRNA_Sec_kinase_arc

Family

43

false

This entry represents L-seryl-tRNA(Sec) kinase, which is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. ...

[ "GO:0016301", "GO:0016773", "GO:0001717" ]

[ "kinase activity", "phosphotransferase activity, alcohol group as acceptor", "conversion of seryl-tRNAsec to selenocys-tRNAsec" ]

[ "molecular_function", "molecular_function", "biological_process" ]

3

[ "NCBIFAM" ]

[ "TIGR03574" ]

[ "selen_PSTK" ]

[ 43 ]

1

[ "EC", "GP", "METACYC" ]

[ "2.7.1.164", "GenProp0797", "PWY-6281" ]

[ "EC:2.7.1.164", "GP:GenProp0797", "METACYC:PWY-6281" ]

3

[ "3a4l", "3a4m", "3a4n", "3adb", "3adc", "3add", "3am1" ]

7

[ "PUB00045476" ]

[ "18174226" ]

[ "Characterization and evolutionary history of an archaeal kinase involved in selenocysteinyl-tRNA formation." ]

[ 2008 ]

1

[ "IPR013641" ]

[]

1

0

1

[ "Methanomada group" ]

[ 43 ]

1

[]

0

true

Family

L-seryl-tRNA(Sec) kinase, archaea

L-seryl-tRNA_Sec_kinase_arc

6

IPR020025

20,025

UDP-N-acetylglucosamine 4,6-dehydratase (inverting)

PseB

Family

3,392

false

This enzyme catalyses the first step in the biosynthesis of pseudaminic acid, the conversion of UDP-N-acetylglucosamine to UDP-4-keto-6-deoxy-N-acetylglucosamine [ , , , , ].

[]

0

[ "NCBIFAM" ]

[ "TIGR03589" ]

[ "PseB" ]

[ 3392 ]

1

[ "EC", "GP", "METACYC", "METACYC", "METACYC", "METACYC", "METACYC" ]

[ "4.2.1.115", "GenProp0796", "PWY-6143", "PWY-7330", "PWY-7331", "PWY-7332", "PWY-7719" ]

[ "EC:4.2.1.115", "GP:GenProp0796", "METACYC:PWY-6143", "METACYC:PWY-7330", "METACYC:PWY-7331", "METACYC:PWY-7332", "METACYC:PWY-7719" ]

7

[ "2gn4", "2gn6", "2gn8", "2gn9", "2gna" ]

5

[ "PUB00045365", "PUB00045366", "PUB00045888", "PUB00045889", "PUB00045890" ]

[ "16684771", "16286454", "17893902", "14960321", "14617187" ]

[ "Functional characterization of the flagellar glycosylation locus in Campylobacter jejuni 81-176 using a focused metabolomics approach.", "Functional characterization of dehydratase/aminotransferase pairs from Helicobacter and Campylobacter: enzymes distinguishing the pseudaminic acid and bacillosamine biosynthet...

[ 2006, 2006, 2008, 2004, 2003 ]

5

[]

0

null

[ "Archaea", "Bacteria", "Limosa lapponica baueri", "unclassified sequences" ]

[ 23, 3326, 1, 42 ]

4

[]

0

true

Family

UDP-N-acetylglucosamine 4,6-dehydratase (inverting)

PseB

3

IPR020026

20,026

UDP-4-amino-4,6-dideoxy-N-acetyl-beta-L-altrosamine transaminase

PseC

Family

3,315

false

This entry represents a family of aminotransferases involved in the biosynthesis of pseudaminic acid [ , , ]. They convert UDP-4-keto-6-deoxy-N-acetylglucosamine into UDP-4-amino-4,6-dideoxy-N-acetylgalactose. Pseudaminic acid has a role in surface polysaccharide in Pseudomonas as well as in the modification of flagell...

[]

0

[ "NCBIFAM" ]

[ "TIGR03588" ]

[ "PseC" ]

[ 3315 ]

1

[ "EC", "GP", "METACYC", "METACYC", "METACYC" ]

[ "2.6.1.92", "GenProp0796", "PWY-6143", "PWY-7467", "PWY-7842" ]

[ "EC:2.6.1.92", "GP:GenProp0796", "METACYC:PWY-6143", "METACYC:PWY-7467", "METACYC:PWY-7842" ]

5

[ "2fn6", "2fni", "2fnu" ]

3

[ "PUB00040745", "PUB00045365", "PUB00045366", "PUB00045367" ]

[ "16421095", "16684771", "16286454", "15790564" ]

[ "Structural and functional characterization of PseC, an aminotransferase involved in the biosynthesis of pseudaminic acid, an essential flagellar modification in Helicobacter pylori.", "Functional characterization of the flagellar glycosylation locus in Campylobacter jejuni 81-176 using a focused metabolomics app...

[ 2006, 2006, 2006, 2005 ]

4

[ "IPR000653" ]

[]

1

0

1

[ "Archaea", "Bacteria", "Limosa lapponica baueri", "unclassified sequences" ]

[ 27, 3255, 1, 32 ]

4

[]

0

true

Family

UDP-4-amino-4,6-dideoxy-N-acetyl-beta-L-altrosamine transaminase

PseC

8

IPR020027

20,027

Pseudaminic acid biosynthesis-associated methyltransferase

Pseudamin_synth-assoc_MeTrfase

Family

362

false

This entry represents a group of methyltransferases that are encoded within operons for the biosynthesis of pseudaminic acid, a component of exopolysaccharide and flagellin glycosyl modifications [ ]. These enzymes may convert one of the two hydroxyl groups of pseudaminic acid to a methoxy group.

[]

0

[ "NCBIFAM" ]

[ "TIGR03587" ]

[ "Pse_Me-ase" ]

[ 362 ]

1

[ "GP" ]

[ "GenProp0796" ]

[ "GP:GenProp0796" ]

1

[]

0

[ "PUB00045365" ]

[ "16684771" ]

[ "Functional characterization of the flagellar glycosylation locus in Campylobacter jejuni 81-176 using a focused metabolomics approach." ]

[ 2006 ]

1

[]

0

null

[ "Archaea", "Bacteria", "ecological metagenomes", "uncultured Caudovirales phage" ]

[ 6, 339, 15, 2 ]

4

[]

0

true

Family

Pseudaminic acid biosynthesis-associated methyltransferase

Pseudamin_synth-assoc_MeTrfase

1

IPR020028

20,028

L-seryl-tRNA(Sec)kinase, eukaryote

L-seryl-tRNA_Sec_kinase_euk

Family

389

false

This entry represents L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side c...

[]

0

[ "NCBIFAM" ]

[ "TIGR03575" ]

[ "selen_PSTK_euk" ]

[ 389 ]

1

[ "REACTOME" ]

[ "R-HSA-2408557" ]

[ "REACTOME:R-HSA-2408557" ]

1

[]

0

[ "PUB00045475" ]

[ "15317934" ]

[ "Identification and characterization of phosphoseryl-tRNA[Ser]Sec kinase." ]

[ 2004 ]

1

[ "IPR013641" ]

[]

1

0

1

[ "Sarcopterygii" ]

[ 389 ]

1

[ "Homo sapiens", "Mus musculus", "Rattus norvegicus" ]

[ 2, 1, 4 ]

3

true

Family

L-seryl-tRNA(Sec)kinase, eukaryote

L-seryl-tRNA_Sec_kinase_euk

2

IPR020029

20,029

CRISPR-associated protein Csp2

CRISPR-assoc_Csp2

Family

36

false

Members of this protein family are cas, or CRISPR-associated, proteins. They are found within cas gene clusters that are adjacent to CRISPR DNA repeats mainly in Bacteroidales, including Porphyromonas gingivalis. The CRISPR-Cas system is a prokaryotic defence mechanism against foreign genetic elements. The key elements...

[]

0

[ "PFAM", "NCBIFAM" ]

[ "PF27787", "TIGR03487" ]

[ "CRISPR-assoc_Csp2", "cas_csp2" ]

[ 36, 15 ]

2

[ "GP", "GP" ]

[ "GenProp0021", "GenProp0768" ]

[ "GP:GenProp0021", "GP:GenProp0768" ]

2

[]

0

[ "PUB00043286", "PUB00043287", "PUB00043288", "PUB00060621", "PUB00071890" ]

[ "17442114", "17379808", "16545108", "21699496", "24459147" ]

[ "Evolutionary conservation of sequence and secondary structures in CRISPR repeats.", "CRISPR provides acquired resistance against viruses in prokaryotes.", "A putative RNA-interference-based immune system in prokaryotes: computational analysis of the predicted enzymatic machinery, functional analogies with euka...

[ 2007, 2007, 2006, 2011, 2014 ]

5

[]

0

null

[ "Bacteria", "termite gut metagenome" ]

[ 35, 1 ]

2

[]

0

true

Family

CRISPR-associated protein Csp2

CRISPR-assoc_Csp2

2

IPR020030

20,030

Pseudaminic acid biosynthesis, PseI

Pseudaminic_synth_PseI

Family

3,541

false

The PseI protein catalyses the final step of pseudaminic acid biosynthesis, the condensation of PEP with 6-deoxy-beta-L-AltNAc4NAc to generate pseudaminic acid [ ]. PseI is part of a broader family of synthases that includes the NeuB protein involved in the PEP-dependent biosynthesis of neuraminic acid.

[]

0

[ "NCBIFAM" ]

[ "TIGR03586" ]

[ "PseI" ]

[ 3541 ]

1

[ "EC", "GP", "METACYC" ]

[ "2.5.1.97", "GenProp0796", "PWY-6143" ]

[ "EC:2.5.1.97", "GP:GenProp0796", "METACYC:PWY-6143" ]

3

[ "8h2c" ]

1

[ "PUB00045365" ]

[ "16684771" ]

[ "Functional characterization of the flagellar glycosylation locus in Campylobacter jejuni 81-176 using a focused metabolomics approach." ]

[ 2006 ]

1

[]

0

null

[ "Archaea", "Bacteria", "Cyprideis torosa", "unclassified sequences", "uncultured Caudovirales phage" ]

[ 19, 3482, 1, 37, 2 ]

5

[]

0

true

Family

Pseudaminic acid biosynthesis, PseI

Pseudaminic_synth_PseI

2

IPR020031

20,031

CRISPR-associated protein Cas5p

CRISPR-assoc_Cas5p

Family

34

false

Members of this protein family are cas, or CRISPR-associated, proteins. The two sequences in the alignment seed are found within cas gene clusters that are adjacent to CRISPR DNA repeats mainly in Bacteroidales, including Porphyromonas gingivalis. This cas protein family is unique to the Pging (Porphyromonas gingivalis...

[]

0

[ "PFAM", "NCBIFAM", "CDD" ]

[ "PF27788", "TIGR03488", "cd09716" ]

[ "CRISPR-assoc_Cas5p", "cas_Cas5p", "Cas5_I" ]

[ 34, 20, 10 ]

3

[ "GP" ]

[ "GenProp0768" ]

[ "GP:GenProp0768" ]

1

[]

0

[ "PUB00043286", "PUB00043287", "PUB00043288", "PUB00060621", "PUB00071890" ]

[ "17442114", "17379808", "16545108", "21699496", "24459147" ]

[ "Evolutionary conservation of sequence and secondary structures in CRISPR repeats.", "CRISPR provides acquired resistance against viruses in prokaryotes.", "A putative RNA-interference-based immune system in prokaryotes: computational analysis of the predicted enzymatic machinery, functional analogies with euka...

[ 2007, 2007, 2006, 2011, 2014 ]

5

[]

0

null

[ "Bacteria", "termite gut metagenome" ]

[ 33, 1 ]

2

[]

0

true

Family

CRISPR-associated protein Cas5p

CRISPR-assoc_Cas5p

5

IPR020032

20,032

CRISPR-associated protein Csp1

CRISPR-assoc_Csp1

Family

30

false

The CRISPR-Cas system is a prokaryotic defence mechanism against foreign genetic elements. The key elements of this defence system are the Cas proteins and the CRISPR RNA. Members of this protein family are Csp1, also known as Cas7, a CRISPR-associated (cas) gene marker for the Pging subtype of CRISPR/cas system, as fo...

[]

0

[ "NCBIFAM", "CDD" ]

[ "TIGR03489", "cd09717" ]

[ "cas_csp1", "Cas7_I" ]

[ 30, 13 ]

2

[ "GP", "GP" ]

[ "GenProp0021", "GenProp0768" ]

[ "GP:GenProp0021", "GP:GenProp0768" ]

2

[]

0

[ "PUB00043286", "PUB00043287", "PUB00043288", "PUB00060621", "PUB00071890" ]

[ "17442114", "17379808", "16545108", "21699496", "24459147" ]

[ "Evolutionary conservation of sequence and secondary structures in CRISPR repeats.", "CRISPR provides acquired resistance against viruses in prokaryotes.", "A putative RNA-interference-based immune system in prokaryotes: computational analysis of the predicted enzymatic machinery, functional analogies with euka...

[ 2007, 2007, 2006, 2011, 2014 ]

5

[ "IPR010154" ]

[]

1

0

1

[ "Bacteria", "termite gut metagenome" ]

[ 29, 1 ]

2

[]

0

true

Family

CRISPR-associated protein Csp1

CRISPR-assoc_Csp1

4

IPR020033

20,033

Pyridoxal phosphate-dependent transferase, archaea

PyrdxlP-dep_transferase_arc

Family

95

false

Pyridoxal phosphate is the active form of vitamin B6 (pyridoxine or pyridoxal). Pyridoxal 5'-phosphate (PLP) is a versatile catalyst, acting as a coenzyme in a multitude of reactions, including decarboxylation, deamination and transamination [ , , ]. PLP-dependent enzymes are primarily involved in the biosynthesis of a...

[]

0

[ "NCBIFAM" ]

[ "TIGR03576" ]

[ "pyridox_MJ0158" ]

[ 95 ]

1

[]

0

[ "2aeu", "2aev" ]

2

[ "PUB00006322", "PUB00035504", "PUB00035505", "PUB00035506", "PUB00035507", "PUB00035508" ]

[ "7748903", "15581583", "8690703", "15189147", "17109392", "16763894" ]

[ "Pyridoxal phosphate-dependent enzymes.", "Reaction specificity in pyridoxal phosphate enzymes.", "Pyridoxal enzymes: mechanistic diversity and uniformity.", "Pyridoxal phosphate enzymes: mechanistic, structural, and evolutionary considerations.", "Exploring the pyridoxal 5'-phosphate-dependent enzymes.", ...

[ 1995, 2005, 1995, 2004, 2006, 2006 ]

6

[]

0

null

[ "Methanomada group", "bioreactor metagenome" ]

[ 94, 1 ]

2

[]

0

true

Family

Pyridoxal phosphate-dependent transferase, archaea

PyrdxlP-dep_transferase_arc

7

IPR020034

20,034

Conserved hypothetical protein CHP03577, EF0830/AHA3911

CHP03577_EF0830/AHA3911

Family

1,143

false

This entry represents small (about 120 amino acid) proteins found in both Gram-positive (e.g. Enterococcus faecalis) and Gram-negative (e.g. Aeromonas hydrophila) bacteria, as part of a cluster of conserved proteins. The function is unknown.

[]

0

[ "PFAM", "NCBIFAM" ]

[ "PF14272", "TIGR03577" ]

[ "Gly_rich_SFCGS", "EF_0830" ]

[ 1143, 1130 ]

2

[ "GP" ]

[ "GenProp0798" ]

[ "GP:GenProp0798" ]

1

[]

0

[]

0

[]

0

null

[ "Bacteria" ]

[ 1143 ]

1

[]

0

true

Family

Conserved hypothetical protein CHP03577, EF0830/AHA3911

CHP03577_EF0830/AHA3911

7

IPR020036

20,036

UDP-4-amino-4,6-dideoxy-N-acetyl-beta-L-altrosamine N-acetyltransferase

PseH

Family

1,145

false

This entry represents a family of N-acetyltransferases that are proposed to perform an N-acetylation step in the process of pseudaminic acid biosynthesis in Campylobacter species [ ]. They are commonly encoded in apparent operons with other genes involved in the biosynthesis of pseudaminic acid, and are components of f...

[]

0

[ "NCBIFAM" ]

[ "TIGR03585" ]

[ "PseH" ]

[ 1145 ]

1

[ "GP" ]

[ "GenProp0796" ]

[ "GP:GenProp0796" ]

1

[ "4ri1", "4xpk", "4xpl" ]

3

[ "PUB00045365" ]

[ "16684771" ]

[ "Functional characterization of the flagellar glycosylation locus in Campylobacter jejuni 81-176 using a focused metabolomics approach." ]

[ 2006 ]

1

[]

0

null

[ "Archaea", "Bacteria", "metagenomes" ]

[ 4, 1129, 12 ]

3

[]

0

true

Family

UDP-4-amino-4,6-dideoxy-N-acetyl-beta-L-altrosamine N-acetyltransferase

PseH

8

IPR020037

20,037

Protein of unknown function DUF4312

DUF4312

Family

1,150

false

The proteins in this family are functionally uncharacterised.

[]

0

[ "PFAM", "NCBIFAM" ]

[ "PF14189", "TIGR03578" ]

[ "DUF4312", "EF_0831" ]

[ 1150, 1044 ]

2

[ "GP" ]

[ "GenProp0798" ]

[ "GP:GenProp0798" ]

1

[]

0

[]

0

[]

0

null

[ "Bacteria", "bioreactor metagenome" ]

[ 1149, 1 ]

2

[]

0

true

Family

Protein of unknown function DUF4312

DUF4312

8

IPR020038

20,038

Circular bacteriocin

Circ_bacteriocin

Family

302

false

Circular bacteriocins are antimicrobial peptides produced by a variety of Gram-positive bacteria. They are part of a growing family of ribosomally synthesized peptides with a head-to-tail cyclization of their backbone that are found in mammals, plants, fungi and bacteria and are exceptionally stable [ ]. These circular...

[]

0

[ "PFAM", "NCBIFAM" ]

[ "PF09221", "TIGR03651" ]

[ "Bacteriocin_IId", "circ_ocin_uber" ]

[ 282, 223 ]

2

[]

0

[ "1e68", "1o82", "1o83", "1o84", "2kjf", "2mp8", "4rgd" ]

7

[ "PUB00013253", "PUB00094524", "PUB00094525", "PUB00094526", "PUB00094527", "PUB00094528", "PUB00094529" ]

[ "11005847", "29177092", "21664137", "18552180", "17464077", "7929005", "7925951" ]

[ "Bacteriocin AS-48, a microbial cyclic polypeptide structurally and functionally related to mammalian NK-lysin.", "Genome-guided identification of novel head-to-tail cyclized antimicrobial peptides, exemplified by the discovery of pumilarin.", "Structure and genetics of circular bacteriocins.", "Isolation and...

[ 2000, 2017, 2011, 2008, 2007, 1994, 1994 ]

7

[]

0

null

[ "Bacteria", "metagenomes" ]

[ 300, 2 ]

2

[]

0

true

Family

Circular bacteriocin

Circ_bacteriocin

8

IPR020039

20,039

Pseudaminic acid cytidylyltransferase

PseF

Family

1,802

false

This entry represents PseF, a Acylneuraminate cytidylyltransferase domain-containing protein which is homologous to the NeuA protein responsible for the transfer of CMP to neuraminic acid. PseF is responsible for the transfer of CMP to the structurally related sugar, pseudaminic acid, which is observed as a component o...

[]

0

[ "NCBIFAM" ]

[ "TIGR03584" ]

[ "PseF" ]

[ 1802 ]

1

[ "EC", "GP", "METACYC" ]

[ "2.7.7.81", "GenProp0796", "PWY-6143" ]

[ "EC:2.7.7.81", "GP:GenProp0796", "METACYC:PWY-6143" ]

3

[ "9ftb", "9ftc" ]

2

[ "PUB00045365" ]

[ "16684771" ]

[ "Functional characterization of the flagellar glycosylation locus in Campylobacter jejuni 81-176 using a focused metabolomics approach." ]

[ 2006 ]

1

[ "IPR003329" ]

[]

1

0

1

[ "Bacteria", "Methanomicrobiales", "metagenomes" ]

[ 1786, 3, 13 ]

3

[]

0

true

Family

Pseudaminic acid cytidylyltransferase

PseF

2

IPR020040

20,040

Large ribosomal subunit protein uL6, alpha-beta domain

Ribosomal_uL6_a/b-dom

Domain

36,845

false

This entry represents the α-β domain found duplicated in ribosomal uL6 proteins. This domain consists of two β-sheets and one α-helix packed around single core [ ]. Large ribosomal subunit protein uL6 was previously known as L6. In Escherichia coli, it is located in the aminoacyl-tRNA binding site of the peptidyltransf...

[ "GO:0003735", "GO:0019843", "GO:0006412", "GO:0005840" ]

[ "structural constituent of ribosome", "rRNA binding", "translation", "ribosome" ]

[ "molecular_function", "molecular_function", "biological_process", "cellular_component" ]

4

[ "PFAM" ]

[ "PF00347" ]

[ "Ribosomal_L6" ]

[ 36845 ]

1

[ "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOM...

[ "R-BTA-156827", "R-BTA-1799339", "R-BTA-6791226", "R-BTA-72689", "R-BTA-72706", "R-BTA-975956", "R-BTA-975957", "R-CEL-156827", "R-CEL-1799339", "R-CEL-72689", "R-CEL-72706", "R-CEL-975956", "R-CEL-975957", "R-DDI-156827", "R-DDI-1799339", "R-DDI-72689", "R-DDI-72706", "R-DDI-97595...

[ "REACTOME:R-BTA-156827", "REACTOME:R-BTA-1799339", "REACTOME:R-BTA-6791226", "REACTOME:R-BTA-72689", "REACTOME:R-BTA-72706", "REACTOME:R-BTA-975956", "REACTOME:R-BTA-975957", "REACTOME:R-CEL-156827", "REACTOME:R-CEL-1799339", "REACTOME:R-CEL-72689", "REACTOME:R-CEL-72706", "REACTOME:R-CEL-9759...

64

[ "1c04", "1eg0", "1ffk", "1jj2", "1k73", "1k8a", "1k9m", "1kc8", "1kd1", "1kqs", "1m1k", "1m90", "1ml5", "1n8r", "1nji", "1nkw", "1nwx", "1nwy", "1q7y", "1q81", "1q82", "1q86", "1qvf", "1qvg", "1rl6", "1s72", "1sm1", "1vq4", "1vq5", "1vq6", "1vq7", "1vq8"...

1,790

[ "PUB00001241", "PUB00007068", "PUB00007069", "PUB00007070" ]

[ "8262035", "11297922", "11290319", "11114498" ]

[ "Ribosomal protein L6: structural evidence of gene duplication from a primitive RNA binding protein.", "Atomic structures at last: the ribosome in 2000.", "The ribosome in focus.", "The end of the beginning: structural studies of ribosomal proteins." ]

[ 1993, 2001, 2001, 2000 ]

4

[]

0

null

[ "Archaea", "Bacteria", "Eukaryota", "unclassified sequences" ]

[ 926, 24296, 11117, 506 ]

4

[ "Arabidopsis thaliana", "Caenorhabditis elegans", "Danio rerio", "Drosophila melanogaster", "Escherichia coli (strain K12)", "Homo sapiens", "Mus musculus", "Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987)", "Oryza sativa subsp. japonica", "Rattus norvegicus",...

[ 17, 1, 3, 2, 1, 10, 8, 2, 14, 9, 3, 3, 30 ]

13

true

Domain

Large ribosomal subunit protein uL6, alpha-beta domain

Ribosomal_uL6_a/b-dom

5

IPR020042

20,042

Protein of unknown function DUF4311

DUF4311

Family

1,195

false

The proteins in this family are functionally uncharacterised.

[]

0

[ "PFAM", "NCBIFAM" ]

[ "PF14188", "TIGR03580" ]

[ "DUF4311", "EF_0832" ]

[ 1195, 1105 ]

2

[ "GP" ]

[ "GenProp0798" ]

[ "GP:GenProp0798" ]

1

[]

0

[]

0

[]

0

null

[ "Bacteria", "bioreactor metagenome" ]

[ 1193, 2 ]

2

[]

0

true

Family

Protein of unknown function DUF4311

DUF4311

3

IPR020043

20,043

Deacetylase Atu3266-like

Deacetylase_Atu3266-like

Family

5,275

false

Atu3266 from Agrobacterium tumefaciens and Oant2987 from Ochrobactrum anthropi catalyze the hydrolysis of acetyl-(R)-mandelate and similar esters [ ]. These enzymes were previously misannotated as either dihydroorotases or adenine deaminases.

[ "GO:0019213" ]

[ "deacetylase activity" ]

[ "molecular_function" ]

1

[ "NCBIFAM", "PIRSF", "PANTHER" ]

[ "NF006689", "PIRSF039004", "PTHR42717" ]

[ "PRK09237.1", "ADE_EF_0837", "" ]

[ 3666, 3724, 5275 ]

3

[ "EC", "GP", "METACYC", "METACYC", "METACYC", "METACYC", "METACYC", "METACYC", "METACYC", "METACYC", "METACYC", "METACYC", "METACYC", "METACYC", "METACYC", "METACYC", "METACYC", "METACYC", "METACYC", "METACYC", "METACYC", "METACYC", "METACYC", "METACYC", "METACYC", "...

[ "3.1.1.-", "GenProp0798", "PWY-1921", "PWY-5835", "PWY-6190", "PWY-6308", "PWY-6322", "PWY-6339", "PWY-6415", "PWY-6558", "PWY-6848", "PWY-7002", "PWY-7352", "PWY-7367", "PWY-7521", "PWY-7599", "PWY-7660", "PWY-7712", "PWY-7713", "PWY-7730", "PWY-7769", "PWY-7982", "PWY-8...

[ "EC:3.1.1.-", "GP:GenProp0798", "METACYC:PWY-1921", "METACYC:PWY-5835", "METACYC:PWY-6190", "METACYC:PWY-6308", "METACYC:PWY-6322", "METACYC:PWY-6339", "METACYC:PWY-6415", "METACYC:PWY-6558", "METACYC:PWY-6848", "METACYC:PWY-7002", "METACYC:PWY-7352", "METACYC:PWY-7367", "METACYC:PWY-752...

29

[ "2ics", "2ogj", "8je0", "8wzy" ]

4

[ "PUB00086571" ]

[ "23214420" ]

[ "Functional annotation and three-dimensional structure of an incorrectly annotated dihydroorotase from cog3964 in the amidohydrolase superfamily." ]

[ 2013 ]

1

[]

[ "IPR047601" ]

0

1

0

[ "Archaea", "Bacteria", "Eukaryota", "metagenomes" ]

[ 3, 5050, 97, 125 ]

4

[]

0

true

Family

Deacetylase Atu3266-like

Deacetylase_Atu3266-like

5

IPR020044

20,044

PRD domain protein, EF0829/AHA3910

PRD_EF0829/AHA3910

Family

1,177

false

Members of this family of relatively uncommon proteins are found in both Gram-positive (e.g. Enterococcus faecalis) and Gram-negative (e.g. Aeromonas hydrophila) bacteria, as part of a cluster of conserved proteins. The proteins contain a PRD domain (see ). Their function is unknown.

[]

0

[ "NCBIFAM" ]

[ "TIGR03582" ]

[ "EF_0829" ]

[ 1177 ]

1

[ "GP" ]

[ "GenProp0798" ]

[ "GP:GenProp0798" ]

1

[ "3nuf" ]

1

[]

0

[]

0

null

[ "Bacteria", "bioreactor metagenome" ]

[ 1175, 2 ]

2

[]

0

true

Family

PRD domain protein, EF0829/AHA3910

PRD_EF0829/AHA3910

1

IPR020045

20,045

DNA polymerase I-like, H3TH domain

DNA_polI_H3TH

Domain

38,822

false

This entry represents the H3TH (helix-3-turn-helix) domain of the 5'-3' exonuclease (53EXO) of mutli-domain DNA polymerase I and single domain protein homologues. Taq (Thermus aquaticus) DNA polymerase I contains a polymerase domain for synthesizing a new DNA strand and a 53EXO domain for cleaving RNA primers or damage...

[ "GO:0003677", "GO:0003824" ]

[ "DNA binding", "catalytic activity" ]

[ "molecular_function", "molecular_function" ]

2

[ "PFAM", "CDD" ]

[ "PF01367", "cd09898" ]

[ "5_3_exonuc", "H3TH_53EXO" ]

[ 38802, 38077 ]

2

[]

0

[ "1bgx", "1exn", "1taq", "1tau", "1ut5", "1ut8", "1xo1", "3zd8", "3zd9", "3zda", "3zdb", "3zdc", "3zdd", "3zde", "5hml", "5hmm", "5hnk", "5hp4", "6c33", "6c34", "6c35", "6c36", "6vde", "9l55", "9l56" ]

25

[ "PUB00019069", "PUB00086542", "PUB00086543" ]

[ "8717047", "15247286", "9264032" ]

[ "Structure of Taq polymerase with DNA at the polymerase active site.", "Structure-specific DNA-induced conformational changes in Taq polymerase revealed by small angle neutron scattering.", "Improvement of the 3'-5' exonuclease activity of Taq DNA polymerase by protein engineering in the active site." ]

[ 1996, 2004, 1997 ]

3

[]

0

null

[ "Archaea", "Bacteria", "Eukaryota", "Viruses", "unclassified sequences" ]

[ 4, 36025, 1700, 275, 818 ]

5

[ "Arabidopsis thaliana", "Escherichia coli (strain K12)", "Oryza sativa subsp. japonica", "Zea mays" ]

[ 16, 2, 10, 23 ]

4

true

Domain

DNA polymerase I-like, H3TH domain

DNA_polI_H3TH

5

IPR020046

20,046

5'-3' exonuclease, alpha-helical arch, N-terminal

5-3_exonucl_a-hlix_arch_N

Domain

40,235

false

The N-terminal and internal 5'3'-exonuclease domains are commonly found together, and are most often associated with 5' to 3' nuclease activities. The XPG protein signatures ( ) are never found outside the '53EXO' domains. The latter are found in more diverse proteins [ , , ]. The number of amino acids that separate th...

[ "GO:0003677" ]

[ "DNA binding" ]

[ "molecular_function" ]

1

[ "PFAM" ]

[ "PF02739" ]

[ "5_3_exonuc_N" ]

[ 40235 ]

1

[]

0

[ "1bgx", "1exn", "1taq", "1tau", "1tfr", "1ut5", "1ut8", "1xo1", "2ihn", "3h7i", "3h8j", "3h8s", "3h8w", "3zd8", "3zd9", "3zda", "3zdb", "3zdc", "3zdd", "3zde", "5hml", "5hmm", "5hnk", "5hp4", "6c33", "6c34", "6c35", "6c36", "6vde", "9l55", "9l56" ]

31

[ "PUB00001916", "PUB00004415", "PUB00005491", "PUB00019069", "PUB00019070" ]

[ "7926735", "8464724", "10322433", "8717047", "8657312" ]

[ "Functional domains within FEN-1 and RAD2 define a family of structure-specific endonucleases: implications for nucleotide excision repair.", "Evolutionary conservation of excision repair in Schizosaccharomyces pombe: evidence for a family of sequences related to the Saccharomyces cerevisiae RAD2 gene.", "The W...

[ 1994, 1993, 1999, 1996, 1996 ]

5

[]

0

null

[ "Archaea", "Bacteria", "Eukaryota", "Viruses", "unclassified sequences" ]

[ 7, 36339, 1810, 1052, 1027 ]

5

[ "Arabidopsis thaliana", "Escherichia coli (strain K12)", "Oryza sativa subsp. japonica", "Zea mays" ]

[ 18, 2, 10, 26 ]

4

true

Domain

5'-3' exonuclease, alpha-helical arch, N-terminal

5-3_exonucl_a-hlix_arch_N

3

IPR020048

20,048

NADPH-dependent FMN reductase, SsuE

NADPH-dep_FMN_reduc_SsuE

Family

3,735

false

This entry represents a protein family that uses NAD(P)H to reduce FMN and regenerate FMNH2. Members include the homodimeric, NAD(P)H-dependent enzyme SsuE from Escherichia coli, which serves as a partner to an FMNH2-dependent alkanesulphonate monooxygenase. It is induced by sulphate starvation.

[ "GO:0008752", "GO:0046306" ]

[ "FMN reductase [NAD(P)H] activity", "alkanesulfonate catabolic process" ]

[ "molecular_function", "biological_process" ]

2

[ "NCBIFAM" ]

[ "TIGR03567" ]

[ "FMN_reduc_SsuE" ]

[ 3735 ]

1

[ "EC", "GP", "METACYC" ]

[ "1.5.1.38", "GenProp1424", "PWY-7723" ]

[ "EC:1.5.1.38", "GP:GenProp1424", "METACYC:PWY-7723" ]

3

[ "4ltd", "4ltm", "4ltn", "4pty", "4ptz", "4pu0", "6dqi", "6dqo", "6dqp" ]

9

[]

0

[]

0

null

[ "Bacteria", "Eukaryota", "metagenomes" ]

[ 3725, 3, 7 ]

3

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

NADPH-dependent FMN reductase, SsuE

NADPH-dep_FMN_reduc_SsuE

3

IPR020049

20,049

Major capsid protein-like

Major_capsid-like

Family

1,897

false

This entry represents a group of proteins from tailed bacteriophages, bacterial prophages and some lower eukaryotes, including Major capsid protein from Pseudomonas phage KPP22 [ ]. This family was previously known as DUF2184.

[]

0

[ "PFAM", "PIRSF" ]

[ "PF09950", "PIRSF029202" ]

[ "Major_capside", "UCP029202" ]

[ 1897, 1471 ]

2

[]

0

[ "7kmx", "8hdt", "9kmg", "9kmh", "9kzj" ]

5

[ "PUB00151909" ]

[ "27208109" ]

[ "Analyses of Short-Term Antagonistic Evolution of Pseudomonas aeruginosa Strain PAO1 and Phage KPP22 (Myoviridae Family, PB1-Like Virus Genus)." ]

[ 2016 ]

1

[]

0

null

[ "Bacteria", "Candidatus Methanogaster sp. ANME-2c ERB4", "Opisthokonta", "Viruses", "metagenomes" ]

[ 1462, 1, 7, 409, 18 ]

5

[]

0

true

Family

Major capsid protein-like

Major_capsid-like

8

IPR020050

20,050

FO synthase, subunit 2

FO_synthase_su2

Family

11,881

false

FO synthase catalyzes the radical-mediated transfer of the hydroxybenzyl group from 4-hydroxyphenylpyruvate (HPP) to 5-amino-6-ribitylamino-2,4(1H,3H)-pyrimidinedione to form 7,8-didemethyl-8-hydroxy-5-deazariboflavin (FO) [ ]. This entry represents CofH/subunit 2 of FO synthase, it binds 1 4Fe-4S cluster, which is coo...

[ "GO:0016765" ]

[ "transferase activity, transferring alkyl or aryl (other than methyl) groups" ]

[ "molecular_function" ]

1

[ "SFLD", "NCBIFAM" ]

[ "SFLDF00343", "TIGR00423" ]

[ "aminofutalosine_synthase_(mqnE", "" ]

[ 9433, 11872 ]

2

[ "EC", "METACYC", "METACYC", "METACYC" ]

[ "2.5.1.147", "PWY-5198", "PWY-8112", "PWY-8113" ]

[ "EC:2.5.1.147", "METACYC:PWY-5198", "METACYC:PWY-8112", "METACYC:PWY-8113" ]

4

[ "6xi9", "6xig" ]

2

[ "PUB00045884" ]

[ "14593448" ]

[ "Identification of the 7,8-didemethyl-8-hydroxy-5-deazariboflavin synthase required for coenzyme F(420) biosynthesis." ]

[ 2003 ]

1

[ "IPR034405" ]

[ "IPR019940", "IPR022432" ]

1

2

0

[ "Archaea", "Bacteria", "Eukaryota", "unclassified sequences" ]

[ 924, 10585, 120, 252 ]

4

[]

0

true

Family

FO synthase, subunit 2

FO_synthase_su2

5

IPR020051

20,051

SagB-type dehydrogenase domain

SagB-type_dehydrogenase

Domain

5,648

false

SagB of Streptococcus pyogenes participates in the maturation of streptolysin S from a ribosomally produced precursor polypeptide [ ]. Chemically similar systems operate on highly diverse sets of bacteriocin precursors in numerous other bacteria. This entry represents a domain found within SgaB and other proteins, many...

[]

0

[ "NCBIFAM" ]

[ "TIGR03605" ]

[ "antibiot_sagB" ]

[ 5648 ]

1

[]

0

[ "3eo7", "5lq4", "6gos", "6grg", "6grh", "6gri", "7ly4", "7ly5", "7ly6", "7ly7", "8pz5" ]

11

[ "PUB00045446" ]

[ "18375757" ]

[ "Discovery of a widely distributed toxin biosynthetic gene cluster." ]

[ 2008 ]

1

[ "IPR029479" ]

[]

1

0

1

[ "Archaea", "Bacteria", "Eukaryota", "ecological metagenomes" ]

[ 451, 5092, 7, 98 ]

4

[ "Arabidopsis thaliana" ]

[ 1 ]

1

true

Domain

SagB-type dehydrogenase domain

SagB-type_dehydrogenase

4

IPR020053

20,053

Ribosome-binding factor A, conserved site

Ribosome-bd_factorA_CS

Conserved_site

17,534

false

Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers...

[ "GO:0006364" ]

[ "rRNA processing" ]

[ "biological_process" ]

1

[ "PROSITE" ]

[ "PS01319" ]

[ "RBFA" ]

[ 17534 ]

1

[]

0

[ "1jos", "1kkg", "1pa4", "2e7g", "2kzf", "6ye5", "7afl", "7afq", "7bog", "7boh", "7nav", "7pnt", "7pnu", "7pnv", "7pnx", "7pny", "7pnz", "7po0", "7x9u", "8bxa", "8byv", "8csr", "8css", "8cst", "8csu", "9g5b", "9g5c", "9g5d" ]

28

[ "PUB00002319", "PUB00007068", "PUB00007069", "PUB00007070" ]

[ "9422595", "11297922", "11290319", "11114498" ]

[ "RimM and RbfA are essential for efficient processing of 16S rRNA in Escherichia coli.", "Atomic structures at last: the ribosome in 2000.", "The ribosome in focus.", "The end of the beginning: structural studies of ribosomal proteins." ]

[ 1998, 2001, 2001, 2000 ]

4

[]

0

null

[ "Bacteria", "Eukaryota", "Thermococcus litoralis", "unclassified sequences" ]

[ 16379, 854, 1, 300 ]

4

[ "Arabidopsis thaliana", "Escherichia coli (strain K12)", "Homo sapiens", "Mus musculus", "Oryza sativa subsp. japonica", "Rattus norvegicus", "Zea mays" ]

[ 3, 1, 1, 2, 2, 4, 2 ]

7

true

Conserved_site

Ribosome-binding factor A, conserved site

Ribosome-bd_factorA_CS

6

IPR020054

20,054

Proteinase inhibitor I16, Streptomyces subtilisin-type inhibitor, conserved site

Prot_inh_SSI_I16_CS

Conserved_site

1,756

false

The Streptomyces family of bacteria produce a number of proteinase inhibitors, which belong to MEROPS inhibitor family I16, clan IY. They are characterised by their strong activity towards subtilisin (MEROPS peptidase family S8, ) and are collectively known as Streptomyces subtilisin inhibitors (SSI). Some SSI also inh...

[ "GO:0004867" ]

[ "serine-type endopeptidase inhibitor activity" ]

[ "molecular_function" ]

1

[ "PROSITE" ]

[ "PS00999" ]

[ "SSI" ]

[ 1756 ]

1

[]

0

[ "2sic", "2tld", "3sic", "3ssi", "5sic", "6i0i" ]

6

[ "PUB00002322", "PUB00002348", "PUB00003205", "PUB00014133" ]

[ "6993452", "1908859", "6387152", "14705960" ]

[ "Importance of the carboxyl-terminal four amino acid residues in the inhibitory activity of Streptomyces subtilisin inhibitor (with a revision of its carboxyl-terminal sequence).", "Inhibition of subtilisin BPN' by reaction site P1 mutants of Streptomyces subtilisin inhibitor.", "Crystal structure at 2.6 A reso...

[ 1980, 1991, 1984, 2004 ]

4

[]

0

null

[ "Actinomycetes", "Mucorineae", "freshwater metagenome" ]

[ 1750, 5, 1 ]

3

[]

0

true

Conserved_site

Proteinase inhibitor I16, Streptomyces subtilisin-type inhibitor, conserved site

Prot_inh_SSI_I16_CS

1

IPR020055

20,055

Ribosomal protein bL25, short-form

Ribosomal_bL25_short

Family

4,813

false

This entry models the short-form of the ribosomal bL25 protein, previously known as L25. The long-form has homology to the general stress protein Ctc of Bacillus subtilis, a mesophile, and ribosomal protein TL5 of Thermus thermophilus, a thermophile. Ribosomal protein L25 of Escherichia coli and Haemophilus influenzae ...

[ "GO:0003735", "GO:0008097", "GO:0006412", "GO:0005840" ]

[ "structural constituent of ribosome", "5S rRNA binding", "translation", "ribosome" ]

[ "molecular_function", "molecular_function", "biological_process", "cellular_component" ]

4

[ "HAMAP" ]

[ "MF_01336" ]

[ "Ribosomal_bL25" ]

[ 4813 ]

1

[]

0

[ "1b75", "1d6k", "1dfu", "1ml5", "2j28", "2rdo", "3bbx", "3j5l", "3j7z", "3j8g", "3j9y", "3j9z", "3ja1", "3jbu", "3jbv", "3jcd", "3jce", "3jcj", "3jcn", "487d", "4csu", "4u1u", "4u1v", "4u20", "4u24", "4u25", "4u26", "4u27", "4uy8", "4v42", "4v47", "4v48"...

586

[ "PUB00070729" ]

[ "17198710" ]

[ "Importance of the 5 S rRNA-binding ribosomal proteins for cell viability and translation in Escherichia coli." ]

[ 2007 ]

1

[]

0

null

[ "Bacteria", "Opisthokonta", "unclassified sequences" ]

[ 4738, 5, 70 ]

3

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Ribosomal protein bL25, short-form

Ribosomal_bL25_short

3

IPR020056

20,056

Large ribosomal subunit protein bL25/Gln-tRNA synthetase, N-terminal

Rbsml_bL25/Gln-tRNA_synth_N

Homologous_superfamily

48,444

false

This superfamily represents the N-terminal domain, which has a β-barrel structure. The bacterial large ribosomal subunit protein bL25, previously known as ribosomal protein L25, is bound to 5S rRNA along with uL5 and uL18, forming a separate domain of the ribosome [ , ]. The solution structure of protein bL25 uncomplex...

[]

0

[ "CATHGENE3D" ]

[ "G3DSA:2.40.240.10" ]

[ "" ]

[ 48444 ]

1

[ "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME" ]

[ "R-BTA-9856649", "R-DDI-9856649", "R-DME-9856649", "R-HSA-2408522", "R-HSA-379716", "R-HSA-379726", "R-HSA-6782315", "R-HSA-9856649", "R-MMU-9856649", "R-RNO-9856649" ]

[ "REACTOME:R-BTA-9856649", "REACTOME:R-DDI-9856649", "REACTOME:R-DME-9856649", "REACTOME:R-HSA-2408522", "REACTOME:R-HSA-379716", "REACTOME:R-HSA-379726", "REACTOME:R-HSA-6782315", "REACTOME:R-HSA-9856649", "REACTOME:R-MMU-9856649", "REACTOME:R-RNO-9856649" ]

10

[ "1b75", "1d6k", "1dfu", "1euq", "1euy", "1exd", "1feu", "1gsg", "1gtr", "1gts", "1ml5", "1njm", "1njp", "1nkw", "1nwx", "1nwy", "1nyl", "1o0b", "1o0c", "1qrs", "1qrt", "1qru", "1qtq", "1sm1", "1vvj", "1vy4", "1vy5", "1vy6", "1vy7", "1xbp", "1zjw", "2hz7"...

1,070

[ "PUB00014120", "PUB00014121", "PUB00014122", "PUB00080279" ]

[ "11418764", "12737824", "10696113", "24524803" ]

[ "Structure of ribosomal protein TL5 complexed with RNA provides new insights into the CTC family of stress proteins.", "tRNA-dependent active site assembly in a class I aminoacyl-tRNA synthetase.", "Structure of Escherichia coli ribosomal protein L25 complexed with a 5S rRNA fragment at 1.8-A resolution.", "A...

[ 2001, 2003, 2000, 2014 ]

4

[]

0

null

[ "Archaea", "Bacteria", "Eukaryota", "Viruses", "unclassified sequences" ]

[ 929, 34679, 11955, 21, 860 ]

5

[ "Arabidopsis thaliana", "Caenorhabditis elegans", "Danio rerio", "Drosophila melanogaster", "Escherichia coli (strain K12)", "Homo sapiens", "Mus musculus", "Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987)", "Oryza sativa subsp. japonica", "Rattus norvegicus",...

[ 24, 5, 3, 2, 2, 20, 12, 2, 19, 11, 2, 2, 35 ]

13

true

Homologous_superfamily

Large ribosomal subunit protein bL25/Gln-tRNA synthetase, N-terminal

Rbsml_bL25/Gln-tRNA_synth_N

6

IPR020057

20,057

Large ribosomal subunit protein bL25, beta domain

Ribosomal_bL25_b-dom

Domain

21,869

false

This entry represents a domain with a mainly β-strand structure found in the large ribosomal subunit protein bL25 and similar proteins predominantly found in bacteria. The bacterial large ribosomal subunit protein bL25, previously known as ribosomal protein L25, is bound to 5S rRNA along with uL5 and uL18, forming a se...

[]

0

[ "PFAM" ]

[ "PF14693" ]

[ "Ribosomal_TL5_C" ]

[ 21869 ]

1

[]

0

[ "1feu", "1njm", "1njp", "1nkw", "1nwx", "1nwy", "1sm1", "1vvj", "1vy4", "1vy5", "1vy6", "1vy7", "1xbp", "2zjp", "2zjq", "2zjr", "3cf5", "3dll", "3pio", "3pip", "4io9", "4ioa", "4ioc", "4l47", "4l71", "4lel", "4lfz", "4lnt", "4lsk", "4lt8", "4p6f", "4p70"...

424

[ "PUB00014120", "PUB00014121", "PUB00014122", "PUB00080279" ]

[ "11418764", "12737824", "10696113", "24524803" ]

[ "Structure of ribosomal protein TL5 complexed with RNA provides new insights into the CTC family of stress proteins.", "tRNA-dependent active site assembly in a class I aminoacyl-tRNA synthetase.", "Structure of Escherichia coli ribosomal protein L25 complexed with a 5S rRNA fragment at 1.8-A resolution.", "A...

[ 2001, 2003, 2000, 2014 ]

4

[]

0

null

[ "Bacteria", "Eukaryota", "Siphoviridae sp. ctBLh2", "candidate division MSBL1 archaeon SCGC-AAA382N08", "unclassified sequences" ]

[ 20129, 1241, 1, 1, 497 ]

5

[ "Arabidopsis thaliana", "Oryza sativa subsp. japonica", "Zea mays" ]

[ 8, 8, 7 ]

3

true

Domain

Large ribosomal subunit protein bL25, beta domain

Ribosomal_bL25_b-dom

1

IPR020058

20,058

Glutamyl/glutaminyl-tRNA synthetase, class Ib, catalytic domain

Glu/Gln-tRNA-synth_Ib_cat-dom

Domain

74,658

false

Aminoacyl-tRNA synthetases (also known as aminoacyl-tRNA ligases) catalyse the attachment of amino acids to their cognate transfer RNA molecules through a highly specific two-step reaction [ , ]. These enzymes vary widely in size and oligomeric state, and share limited sequence homology [ ]. The 20 aminoacyl-tRNA synth...

[ "GO:0004812", "GO:0005524", "GO:0043039" ]

[ "aminoacyl-tRNA ligase activity", "ATP binding", "tRNA aminoacylation" ]

[ "molecular_function", "molecular_function", "biological_process" ]

3

[ "PFAM" ]

[ "PF00749" ]

[ "tRNA-synt_1c" ]

[ 74658 ]

1

[ "EC", "EC", "METACYC", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME" ]

[ "6.1.1", "6.1.1.17", "PWY-5188", "R-BTA-9856649", "R-DDI-9856649", "R-DME-9856649", "R-HSA-2408522", "R-HSA-379716", "R-HSA-379726", "R-HSA-6782315", "R-HSA-9856649", "R-MMU-9856649", "R-RNO-9856649" ]

[ "EC:6.1.1", "EC:6.1.1.17", "METACYC:PWY-5188", "REACTOME:R-BTA-9856649", "REACTOME:R-DDI-9856649", "REACTOME:R-DME-9856649", "REACTOME:R-HSA-2408522", "REACTOME:R-HSA-379716", "REACTOME:R-HSA-379726", "REACTOME:R-HSA-6782315", "REACTOME:R-HSA-9856649", "REACTOME:R-MMU-9856649", "REACTOME:R-R...

13

[ "1euq", "1euy", "1exd", "1g59", "1gln", "1gsg", "1gtr", "1gts", "1j09", "1n75", "1n77", "1n78", "1nyl", "1nzj", "1o0b", "1o0c", "1qrs", "1qrt", "1qru", "1qtq", "1zjw", "2cfo", "2cuz", "2cv0", "2cv1", "2cv2", "2dxi", "2hz7", "2ja2", "2o5r", "2rd2", "2re8"...

73

[ "PUB00000386", "PUB00000723", "PUB00004391", "PUB00005365", "PUB00006397", "PUB00006477", "PUB00007191", "PUB00007363", "PUB00079872", "PUB00079873", "PUB00103850", "PUB00103851" ]

[ "8364025", "8274143", "1852601", "2053131", "9426192", "10673435", "2203971", "10447505", "10704480", "12458790", "9746349", "8078941" ]

[ "Structural basis for transfer RNA aminoacylation by Escherichia coli glutaminyl-tRNA synthetase.", "The aminoacyl-tRNA synthetase family: modules at work.", "Sequence, structural and evolutionary relationships between class 2 aminoacyl-tRNA synthetases.", "Classes of aminoacyl-tRNA synthetases and the establ...

[ 1993, 1993, 1991, 1991, 1997, 2000, 1990, 1999, 2000, 2002, 1998, 1994 ]

12

[]

[ "IPR033910" ]

0

1

0

[ "Archaea", "Bacteria", "Eukaryota", "Viruses", "unclassified sequences" ]

[ 967, 55471, 16932, 29, 1259 ]

5

[ "Arabidopsis thaliana", "Caenorhabditis elegans", "Danio rerio", "Drosophila melanogaster", "Escherichia coli (strain K12)", "Homo sapiens", "Mus musculus", "Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987)", "Oryza sativa subsp. japonica", "Rattus norvegicus",...

[ 17, 5, 12, 5, 3, 24, 14, 3, 13, 14, 3, 3, 52 ]

13

true

Domain

Glutamyl/glutaminyl-tRNA synthetase, class Ib, catalytic domain

Glu/Gln-tRNA-synth_Ib_cat-dom

7

IPR020059

20,059

Glutamyl/glutaminyl-tRNA synthetase, class Ib, anti-codon binding domain

Glu/Gln-tRNA-synth_Ib_codon-bd

Domain

24,696

false

Aminoacyl-tRNA synthetases (also known as aminoacyl-tRNA ligases) catalyse the attachment of amino acids to their cognate transfer RNA molecules through a highly specific two-step reaction [ , ]. These enzymes vary widely in size and oligomeric state, and share limited sequence homology [ ]. The 20 aminoacyl-tRNA synth...

[ "GO:0000166", "GO:0004812", "GO:0005524", "GO:0006418", "GO:0005737" ]

[ "nucleotide binding", "aminoacyl-tRNA ligase activity", "ATP binding", "tRNA aminoacylation for protein translation", "cytoplasm" ]

[ "molecular_function", "molecular_function", "molecular_function", "biological_process", "cellular_component" ]

5

[ "PFAM" ]

[ "PF03950" ]

[ "tRNA-synt_1c_C" ]

[ 24696 ]

1

[ "EC", "EC", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME" ]

[ "6.1.1", "6.1.1.18", "R-BTA-9856649", "R-DDI-9856649", "R-DME-9856649", "R-HSA-2408522", "R-HSA-379716", "R-HSA-379726", "R-HSA-6782315", "R-HSA-9856649", "R-MMU-9856649", "R-RNO-9856649" ]

[ "EC:6.1.1", "EC:6.1.1.18", "REACTOME:R-BTA-9856649", "REACTOME:R-DDI-9856649", "REACTOME:R-DME-9856649", "REACTOME:R-HSA-2408522", "REACTOME:R-HSA-379716", "REACTOME:R-HSA-379726", "REACTOME:R-HSA-6782315", "REACTOME:R-HSA-9856649", "REACTOME:R-MMU-9856649", "REACTOME:R-RNO-9856649" ]

12

[ "1euq", "1euy", "1exd", "1gsg", "1gtr", "1gts", "1nyl", "1o0b", "1o0c", "1qrs", "1qrt", "1qru", "1qtq", "1zjw", "2hz7", "2rd2", "2re8", "3aii", "4h3s", "4jxx", "4jxz", "4jyz", "4p2b", "4r3z", "4ye6", "4ye8", "4ye9", "5bnz", "5zdk", "5zdl", "5zdo", "7wai"...

39

[ "PUB00000386", "PUB00000723", "PUB00004391", "PUB00005365", "PUB00006397", "PUB00006477", "PUB00007191", "PUB00007363", "PUB00079872", "PUB00079873", "PUB00103850", "PUB00103851" ]

[ "8364025", "8274143", "1852601", "2053131", "9426192", "10673435", "2203971", "10447505", "10704480", "12458790", "9746349", "8078941" ]

[ "Structural basis for transfer RNA aminoacylation by Escherichia coli glutaminyl-tRNA synthetase.", "The aminoacyl-tRNA synthetase family: modules at work.", "Sequence, structural and evolutionary relationships between class 2 aminoacyl-tRNA synthetases.", "Classes of aminoacyl-tRNA synthetases and the establ...

[ 1993, 1993, 1991, 1991, 1997, 2000, 1990, 1999, 2000, 2002, 1998, 1994 ]

12

[]

0

null

[ "Archaea", "Bacteria", "Eukaryota", "Viruses", "unclassified sequences" ]

[ 919, 12287, 11168, 24, 298 ]

5

[ "Arabidopsis thaliana", "Caenorhabditis elegans", "Danio rerio", "Drosophila melanogaster", "Escherichia coli (strain K12)", "Homo sapiens", "Mus musculus", "Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987)", "Oryza sativa subsp. japonica", "Rattus norvegicus",...

[ 15, 5, 3, 2, 1, 18, 11, 2, 11, 11, 2, 2, 32 ]

13

true

Domain

Glutamyl/glutaminyl-tRNA synthetase, class Ib, anti-codon binding domain

Glu/Gln-tRNA-synth_Ib_codon-bd

4

IPR020061

20,061

Glutamine-tRNA ligase, alpha-bundle domain superfamily

Glu_tRNA_lig_a-bdl

Homologous_superfamily

14,575

false

Aminoacyl-tRNA synthetases (also known as aminoacyl-tRNA ligases) catalyse the attachment of amino acids to their cognate transfer RNA molecules through a highly specific two-step reaction [ , ]. These enzymes vary widely in size and oligomeric state, and share limited sequence homology [ ]. The 20 aminoacyl-tRNA synth...

[ "GO:0005524" ]

[ "ATP binding" ]

[ "molecular_function" ]

1

[ "CATHGENE3D" ]

[ "G3DSA:1.10.1160.10" ]

[ "" ]

[ 14575 ]

1

[ "EC", "REACTOME" ]

[ "6.1.1", "R-DME-9856649" ]

[ "EC:6.1.1", "REACTOME:R-DME-9856649" ]

2

[ "1euq", "1euy", "1exd", "1gsg", "1gtr", "1gts", "1nyl", "1o0b", "1o0c", "1qrs", "1qrt", "1qru", "1qtq", "1zjw", "2cfo", "2ja2", "2rd2", "2re8", "3afh", "3akz", "3al0", "3pnv", "3pny", "4gri", "4jxx", "4jxz", "4jyz", "4p2b", "5bnz", "6b1z", "6brl", "7wai"...

36

[ "PUB00000386", "PUB00000723", "PUB00004391", "PUB00005365", "PUB00006397", "PUB00006477", "PUB00007191", "PUB00007363", "PUB00079872", "PUB00079873", "PUB00103850", "PUB00103851" ]

[ "8364025", "8274143", "1852601", "2053131", "9426192", "10673435", "2203971", "10447505", "10704480", "12458790", "9746349", "8078941" ]

[ "Structural basis for transfer RNA aminoacylation by Escherichia coli glutaminyl-tRNA synthetase.", "The aminoacyl-tRNA synthetase family: modules at work.", "Sequence, structural and evolutionary relationships between class 2 aminoacyl-tRNA synthetases.", "Classes of aminoacyl-tRNA synthetases and the establ...

[ 1993, 1993, 1991, 1991, 1997, 2000, 1990, 1999, 2000, 2002, 1998, 1994 ]

12

[]

0

null

[ "Archaea", "Bacteria", "Eukaryota", "Viruses", "metagenomes" ]

[ 6, 10760, 3576, 8, 225 ]

5

[ "Danio rerio", "Drosophila melanogaster", "Escherichia coli (strain K12)", "Homo sapiens", "Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987)", "Oryza sativa subsp. japonica", "Rattus norvegicus", "Saccharomyces cerevisiae (strain ATCC 204508 / S288c)", "Schizosac...

[ 2, 1, 1, 6, 1, 2, 1, 1, 1, 3 ]

10

true

Homologous_superfamily

Glutamine-tRNA ligase, alpha-bundle domain superfamily

Glu_tRNA_lig_a-bdl

3

IPR020062

20,062

Nuclear transition protein 1, conserved site

Nuclear_transition_prot1_CS

Conserved_site

124

false

Nuclear transition protein 1 (TP1) is one of the spermatid-specific proteins [ ]. TP1 is a basic protein well conserved in mammalian species. In mammals, the second stage of spermatogenesis is characterised by the conversion of nucleosomal chromatin to the compact, non-nucleosomal and transcriptionally inactive form fo...

[ "GO:0003677", "GO:0007283", "GO:0000786", "GO:0005634" ]

[ "DNA binding", "spermatogenesis", "nucleosome", "nucleus" ]

[ "molecular_function", "biological_process", "cellular_component", "cellular_component" ]

4

[ "PROSITE" ]

[ "PS00541" ]

[ "TP1" ]

[ 124 ]

1

[]

0

[]

0

[ "PUB00001393" ]

[ "2040274" ]

[ "Nuclear transition protein 1 from ram elongating spermatids. Mass spectrometric characterization, primary structure and phosphorylation sites of two variants." ]

[ 1991 ]

1

[]

0

null

[ "Euteleostomi", "Salinicoccus" ]

[ 121, 3 ]

2

[ "Homo sapiens", "Mus musculus", "Rattus norvegicus" ]

[ 2, 2, 3 ]

3

true

Conserved_site

Nuclear transition protein 1, conserved site

Nuclear_transition_prot1_CS

8

IPR020063

20,063

Bordetella pertussis toxin B, subunit 2/3, C-terminal

ToxinB_su2/3_C_BORPE

Domain

218

false

A large group of bacterial exotoxins are referred to as "A/B toxins", essentially because they are formed from two subunits [ ]. The "A" subunit possesses enzyme activity, and is transferred to the host cell following a conformational change in the membrane-bound transport "B" subunit [ ]. Bordetella pertussis is the c...

[ "GO:0005576" ]

[ "extracellular region" ]

[ "cellular_component" ]

1

[ "PFAM" ]

[ "PF02918" ]

[ "Pertussis_S2S3" ]

[ 218 ]

1

[]

0

[ "1bcp", "1prt", "1pto", "4k6l", "4rhr", "4rhs", "5wht", "6p4m", "6p4n", "6p4p", "6p4q", "6p4r", "6p4s", "6p4t", "6ro0", "6tyn", "6tyo", "6tyq", "6vx4", "7k7h", "7k7i", "9e3h", "9e3j", "9e3k", "9e3l", "9mr7" ]

26

[ "PUB00006643", "PUB00007589", "PUB00007590", "PUB00007592" ]

[ "8225592", "3704651", "2873570", "8075982" ]

[ "Characterization of Clostridium perfringens iota-toxin genes and expression in Escherichia coli.", "Pertussis toxin gene: nucleotide sequence and genetic organization.", "Cloning and sequencing of the pertussis toxin genes: operon structure and gene duplication.", "The crystal structure of pertussis toxin." ...

[ 1993, 1986, 1986, 1994 ]

4

[]

0

null

[ "Pseudomonadota" ]

[ 218 ]

1

[]

0

true

Domain

Bordetella pertussis toxin B, subunit 2/3, C-terminal

ToxinB_su2/3_C_BORPE

9

IPR020065

20,065

Conjugal transfer protein TrbK

Conjugal_tfr_protein_TrbK

Family

297

false

Members of this family are encoded between the genes for TrbJ and TrbL of P-type plasmid conjugal transfer systems, and therefore are TrbK, a member of a guild of unrelated TrbK protein families. The similarly located TrbK of plasmid RP4 functions in entry exclusion, and the current family may as well, despite lacking ...

[]

0

[ "NCBIFAM" ]

[ "TIGR04361" ]

[ "TrbK_Ti" ]

[ 297 ]

1

[]

0

[]

0

[ "PUB00019242" ]

[ "10438776" ]

[ "Essential components of the Ti plasmid trb system, a type IV macromolecular transporter." ]

[ 1999 ]

1

[]

0

null

[ "Pseudomonadota" ]

[ 297 ]

1

[]

0

true

Family

Conjugal transfer protein TrbK

Conjugal_tfr_protein_TrbK

8

IPR020066

20,066

Cortexin

Family

3,185

false

Cortexin is a neuron-specific, 82-residue membrane protein which is found especially in vertebrate brain cortex tissue. It may mediate extracellular or intracellular signalling of cortical neurons during forebrain development. Cortexin is present at significant levels in the foetal brain, suggesting that it may be impo...

[]

0

[ "PFAM", "PANTHER" ]

[ "PF11057", "PTHR16736" ]

[ "Cortexin", "" ]

[ 3185, 3116 ]

2

[]

0

[]

0

[ "PUB00045917", "PUB00045918" ]

[ "8336151", "17786280" ]

[ "Identification of cortexin: a novel, neuron-specific, 82-residue membrane protein enriched in rodent cerebral cortex.", "In silico-initiated cloning and molecular characterization of cortexin 3, a novel human gene specifically expressed in the kidney and brain, and well conserved in vertebrates." ]

[ 1993, 2007 ]

2

[]

0

null

[ "Chordata" ]

[ 3185 ]

1

[ "Danio rerio", "Homo sapiens", "Mus musculus", "Rattus norvegicus" ]

[ 10, 5, 7, 5 ]

4

true

Family

Cortexin

5

IPR020067

20,067

Frizzled domain

Frizzled_dom

Domain

28,674

false

The frizzled (fz) domain is an extracellular domain of about 120 amino acids.It was first identified in the alpha-1 chain of type XVIII collagen and in members of the Frizzled family of seven transmembrane (7TM) proteins which act as receptors for secreted Wingless (Wg)/Wnt glycoproteins [ ]. In addition to these prote...

[ "GO:0005515" ]

[ "protein binding" ]

[ "molecular_function" ]

1

[ "PFAM", "PROFILE", "SMART" ]

[ "PF01392", "PS50038", "SM00063" ]

[ "Fz", "FZ", "FRI" ]

[ 26944, 28589, 22915 ]

3

[ "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOM...

[ "R-CEL-4086398", "R-CEL-4086400", "R-CEL-4608870", "R-CEL-4641262", "R-CEL-4641263", "R-CEL-5140745", "R-DME-209214", "R-DME-209338", "R-DME-209387", "R-DME-209440", "R-DME-209472", "R-DME-216119", "R-DME-216217", "R-DME-350368", "R-DME-350376", "R-DME-350379", "R-DME-350411", "R-D...

[ "REACTOME:R-CEL-4086398", "REACTOME:R-CEL-4086400", "REACTOME:R-CEL-4608870", "REACTOME:R-CEL-4641262", "REACTOME:R-CEL-4641263", "REACTOME:R-CEL-5140745", "REACTOME:R-DME-209214", "REACTOME:R-DME-209338", "REACTOME:R-DME-209387", "REACTOME:R-DME-209440", "REACTOME:R-DME-209472", "REACTOME:R-D...

96

[ "1ijx", "1ijy", "2mah", "3hkl", "4c79", "4c7a", "4f0a", "5bpb", "5bpq", "5bqc", "5bqe", "5cl1", "5cm4", "5kzv", "5kzy", "5kzz", "5l7d", "5l7i", "5t44", "5un5", "5un6", "5urv", "5ury", "5urz", "5uwg", "5v56", "5v57", "5wbs", "5xgp", "6ahy", "6c0b", "6d32"...

79

[ "PUB00001039", "PUB00004238", "PUB00005486", "PUB00033661", "PUB00033662", "PUB00033721", "PUB00033722", "PUB00033723", "PUB00033724" ]

[ "9637908", "8717036", "9852758", "9637909", "10082384", "7876242", "10329693", "11452312", "9326585" ]

[ "The Frizzled CRD domain is conserved in diverse proteins including several receptor tyrosine kinases.", "A new member of the frizzled family from Drosophila functions as a Wingless receptor.", "The frizzled motif: in how many different protein families does it occur?", "The Wnt receptor CRD domain is also fo...

[ 1998, 1996, 1998, 1998, 1998, 1995, 1999, 2001, 1997 ]

9

[]

[ "IPR035523", "IPR037441", "IPR041759", "IPR041760", "IPR041761", "IPR041762", "IPR041763", "IPR041764", "IPR041765", "IPR041769", "IPR041770", "IPR041771", "IPR041772", "IPR041773", "IPR041774", "IPR041775", "IPR041776", "IPR041777", "IPR041778", "IPR042742" ]

0

20

0

[ "Eukaryota", "Kangiella spongicola" ]

[ 28673, 1 ]

2

[ "Caenorhabditis elegans", "Danio rerio", "Drosophila melanogaster", "Homo sapiens", "Mus musculus", "Rattus norvegicus" ]

[ 10, 55, 32, 58, 63, 78 ]

6

true

Domain

Frizzled domain

Frizzled_dom

3

IPR020069

20,069

Large ribosomal subunit protein bL9, C-terminal

Ribosomal_bL9_C

Domain

25,693

false

This entry represents the large ribosomal subunit protein bL9. In Escherichia coli, bL9 is known to bind directly to the 23S rRNA. It belongs to a family of ribosomal proteins grouped on the basis of sequence similarities [ ]. The crystal structure of Bacillus stearothermophilus bL9 shows the 149-residue protein compri...

[]

0

[ "PFAM" ]

[ "PF03948" ]

[ "Ribosomal_L9_C" ]

[ 25693 ]

1

[]

0

[ "1div", "1nkw", "1nwx", "1nwy", "1sm1", "1vvj", "1vy4", "1vy5", "1vy6", "1vy7", "1xbp", "2j28", "2rdo", "3bbx", "3j7z", "3j8g", "3j9y", "3j9z", "3ja1", "3jbu", "3jbv", "3jcd", "3jce", "3jcj", "3jcn", "487d", "4csu", "4l47", "4l71", "4lel", "4lfz", "4lnt"...

913

[ "PUB00001252", "PUB00007068", "PUB00007069", "PUB00007070", "PUB00007073" ]

[ "8306963", "11297922", "11290319", "11114498", "12051860" ]

[ "Crystal structure of prokaryotic ribosomal protein L9: a bi-lobed RNA-binding protein.", "Atomic structures at last: the ribosome in 2000.", "The ribosome in focus.", "The end of the beginning: structural studies of ribosomal proteins.", "pH-dependent stability and folding kinetics of a protein with an unu...

[ 1994, 2001, 2001, 2000, 2002 ]

5

[]

0

null

[ "Bacteria", "Eukaryota", "unclassified sequences" ]

[ 23667, 1480, 546 ]

3

[ "Arabidopsis thaliana", "Escherichia coli (strain K12)", "Oryza sativa subsp. japonica", "Zea mays" ]

[ 7, 1, 5, 9 ]

4

true

Domain

Large ribosomal subunit protein bL9, C-terminal

Ribosomal_bL9_C

4

IPR020070

20,070

Large ribosomal subunit protein bL9, N-terminal

Ribosomal_bL9_N

Domain

28,320

false

This entry represents a domain located in the N-terminal section of proteins belonging to the ribosomal protein bL9 family from bacteria and eukaryotes. This entry represents the large ribosomal subunit protein bL9. In Escherichia coli, bL9 is known to bind directly to the 23S rRNA. It belongs to a family of ribosomal ...

[]

0

[ "PFAM", "PROSITE" ]

[ "PF01281", "PS00651" ]

[ "Ribosomal_L9_N", "RIBOSOMAL_L9" ]

[ 28320, 21192 ]

2

[ "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME" ]

[ "R-BTA-5389840", "R-BTA-5419276", "R-BTA-9937383", "R-DME-5389840", "R-DME-5419276", "R-DME-9937383", "R-HSA-5368286", "R-HSA-5389840", "R-HSA-5419276", "R-HSA-9937383", "R-MMU-5389840", "R-MMU-5419276", "R-MMU-9937383", "R-RNO-5389840", "R-RNO-5419276", "R-RNO-9937383" ]

[ "REACTOME:R-BTA-5389840", "REACTOME:R-BTA-5419276", "REACTOME:R-BTA-9937383", "REACTOME:R-DME-5389840", "REACTOME:R-DME-5419276", "REACTOME:R-DME-9937383", "REACTOME:R-HSA-5368286", "REACTOME:R-HSA-5389840", "REACTOME:R-HSA-5419276", "REACTOME:R-HSA-9937383", "REACTOME:R-MMU-5389840", "REACTOM...

16

[ "1cqu", "1div", "1nkw", "1nwx", "1nwy", "1sm1", "1vvj", "1vy4", "1vy5", "1vy6", "1vy7", "1xbp", "2hba", "2hbb", "2hvf", "2j28", "2rdo", "3bbx", "3iy9", "3j5l", "3j7y", "3j7z", "3j8g", "3j9m", "3j9y", "3j9z", "3ja1", "3jbu", "3jbv", "3jcd", "3jce", "3jcj"...

1,060

[ "PUB00001252", "PUB00007068", "PUB00007069", "PUB00007070", "PUB00007073" ]

[ "8306963", "11297922", "11290319", "11114498", "12051860" ]

[ "Crystal structure of prokaryotic ribosomal protein L9: a bi-lobed RNA-binding protein.", "Atomic structures at last: the ribosome in 2000.", "The ribosome in focus.", "The end of the beginning: structural studies of ribosomal proteins.", "pH-dependent stability and folding kinetics of a protein with an unu...

[ 1994, 2001, 2001, 2000, 2002 ]

5

[]

0

null

[ "Bacteria", "Caudoviricetes", "Eukaryota", "Methanotrichaceae", "unclassified sequences" ]

[ 23687, 3, 4121, 2, 507 ]

5

[ "Arabidopsis thaliana", "Caenorhabditis elegans", "Danio rerio", "Drosophila melanogaster", "Escherichia coli (strain K12)", "Homo sapiens", "Mus musculus", "Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987)", "Oryza sativa subsp. japonica", "Rattus norvegicus",...

[ 8, 1, 1, 1, 1, 7, 4, 1, 5, 9, 1, 14 ]

12

true

Domain

Large ribosomal subunit protein bL9, N-terminal

Ribosomal_bL9_N

3

IPR020075

20,075

Uncharacterised protein family AF2234

Uncharacterised_AF2234

Family

376

false

This entry contains uncharacterised prokaryotic proteins which have no known function at present.

[]

0

[ "PFAM" ]

[ "PF10967" ]

[ "DUF2769" ]

[ 376 ]

1

[]

0

[]

0

[]

0

[]

0

null

[ "Archaea", "Bacteria", "ecological metagenomes" ]

[ 296, 47, 33 ]

3

[]

0

true

Family

Uncharacterised protein family AF2234

Uncharacterised_AF2234

9

IPR020076

20,076

Protein of unknown function DUF2768

DUF2768

Family

1,304

false

This entry contains proteins with no known function.

[]

0

[ "PFAM" ]

[ "PF10966" ]

[ "DUF2768" ]

[ 1304 ]

1

[]

0

[]

0

[]

0

[]

0

null

[ "Bacteria", "termite gut metagenome" ]

[ 1302, 2 ]

2

[]

0

true

Family

Protein of unknown function DUF2768

DUF2768

1

IPR020077

20,077

Protein of unknown function DUF5436

DUF5436

Family

19

false

This is a family of unknown function found in Orthopoxvirus.

[]

0

[ "PFAM" ]

[ "PF17504" ]

[ "DUF5436" ]

[ 19 ]

1

[]

0

[]

0

[]

0

[]

0

null

[ "Orthopoxvirus" ]

[ 19 ]

1

[]

0

true

Family

Protein of unknown function DUF5436

DUF5436

3

IPR020079

20,079

Peptidase A26, omptin, conserved site

Peptidase_A26_CS

Conserved_site

964

false

This entry represents two well conserved regions in the central part of these proteins. This group of aspartic peptidases belongs to the MEROPS family A26 (clan AF). Members of the family are transmembrane proteins. The type example for the family is omptin (also known as protease VII) from Escherichia coli, the produc...

[ "GO:0004175", "GO:0006508", "GO:0009279" ]

[ "endopeptidase activity", "proteolysis", "cell outer membrane" ]

[ "molecular_function", "biological_process", "cellular_component" ]

3

[ "PROSITE", "PROSITE" ]

[ "PS00834", "PS00835" ]

[ "OMPTIN_1", "OMPTIN_2" ]

[ 955, 819 ]

2

[]

0

[ "1i78", "2x4m", "2x55", "2x56", "4dcb", "7xw0" ]

6

[ "PUB00000093", "PUB00000349", "PUB00000522", "PUB00001330", "PUB00002071", "PUB00003795", "PUB00011023", "PUB00011707", "PUB00021296", "PUB00042504", "PUB00065205", "PUB00066803", "PUB00076784", "PUB00076785", "PUB00076786", "PUB00076883" ]

[ "2194475", "1851433", "8439290", "6795036", "3056908", "2526282", "10331925", "11566868", "10864493", "2682266", "23254940", "21765428", "4912600", "10497172", "21751400", "11401715" ]

[ "The structure and function of the aspartic proteinases.", "Structural and evolutionary relationships between retroviral and eucaryotic aspartic proteinases.", "Evolutionary families of peptidases.", "Gastric proteinases--structure, function, evolution and mechanism of action.", "Purification, characterizat...

[ 1990, 1991, 1993, 1981, 1988, 1989, 1999, 2001, 2000, 1989, 2013, 2011, 1970, 1999, 2011, 2001 ]

16

[]

0

null

[ "Bacteria", "Nesevirus", "Rhipileae", "hydrothermal vent metagenome" ]

[ 959, 2, 2, 1 ]

4

[ "Escherichia coli (strain K12)" ]

[ 2 ]

1

true

Conserved_site

Peptidase A26, omptin, conserved site

Peptidase_A26_CS

2

IPR020080

20,080

Outer membrane adhesin/peptidase omptin

OM_adhesin/peptidase_omptin

Homologous_superfamily

2,296

false

This entry represents a transmembrane domain with a (10,12) β-barrel structure. This domain is found in: Outer membrane peptidase omptin Outer membrane adhesin OpcA The outer membrane omptin belongs to the MEROPS family A26 (clan AF). The omptin family, comprises a number of novel outer membrane-associated serine pepti...

[ "GO:0004190" ]

[ "aspartic-type endopeptidase activity" ]

[ "molecular_function" ]

1

[ "SSF" ]

[ "SSF69917" ]

[ "" ]

[ 2296 ]

1

[]

0

[ "1i78", "1k24", "2vdf", "2x4m", "2x55", "2x56", "4dcb", "7xw0" ]

8

[ "PUB00002071", "PUB00002246", "PUB00003795", "PUB00013057", "PUB00028792", "PUB00035658" ]

[ "3056908", "8288530", "2526282", "12706886", "11891340", "17114231" ]

[ "Purification, characterization, and primary structure of Escherichia coli protease VII with specificity for paired basic residues: identity of protease VII and OmpT.", "New outer membrane-associated protease of Escherichia coli K-12.", "A Yersinia pestis-specific DNA fragment encodes temperature-dependent coag...

[ 1988, 1994, 1989, 2003, 2002, 2007 ]

6

[]

0

null

[ "Bacteria", "Eukaryota", "Nesevirus", "ecological metagenomes" ]

[ 2268, 5, 2, 21 ]

4

[ "Escherichia coli (strain K12)" ]

[ 2 ]

1

true

Homologous_superfamily

Outer membrane adhesin/peptidase omptin

OM_adhesin/peptidase_omptin

6

IPR020081

20,081

SsrA-binding protein, conserved site

SsrA-bd_prot_CS

Conserved_site

23,815

false

This entry represents SsrA-binding protein (aka small protein B or SmpB), which is a unique RNA-binding protein that is conserved throughout the bacterial kingdom and is an essential component of the SsrA quality-control system. Tight recognition of codon-anticodon pairings by the ribosome ensures the accuracy and fide...

[]

0

[ "PROSITE" ]

[ "PS01317" ]

[ "SSRP" ]

[ 23815 ]

1

[]

0

[ "1j1h", "1k8h", "1p6v", "1wjx", "1zc8", "2czj", "2ob7", "3iyq", "3iyr", "3iz4", "4v6t", "4v8q", "5zey", "6q95", "6q97", "6q98", "6q9a", "7abz", "7ac7", "7acj", "7acr", "7ljp", "8vs9", "8vsa" ]

24

[ "PUB00006449", "PUB00045920" ]

[ "10393194", "19132006" ]

[ "SmpB, a unique RNA-binding protein essential for the peptide-tagging activity of SsrA (tmRNA).", "Ribosome hijacking: a role for small protein B during trans-translation." ]

[ 1999, 2009 ]

2

[]

0

null

[ "Bacteria", "Eukaryota", "Viruses", "candidate division MSBL1 archaeon SCGC-AAA382A20", "unclassified sequences" ]

[ 23267, 93, 14, 1, 440 ]

5

[ "Escherichia coli (strain K12)" ]

[ 2 ]

1

true

Conserved_site

SsrA-binding protein, conserved site

SsrA-bd_prot_CS

9

IPR020083

20,083

Large ribosomal subunit protein eL39, conserved site

Ribosomal_eL39_CS

Conserved_site

3,244

false

A number of eukaryotic and archaebacterial large subunit ribosomal proteins can be grouped on the basis of sequence similarities. This entry represents the large ribosomal subunit protein eL39, of about 50 residues long, being the smallest protein of eukaryotic-type ribosomes. In mammals, eL39 has been described as the...

[ "GO:0003735", "GO:0006412", "GO:0005840" ]

[ "structural constituent of ribosome", "translation", "ribosome" ]

[ "molecular_function", "biological_process", "cellular_component" ]

3

[ "PROSITE" ]

[ "PS00051" ]

[ "RIBOSOMAL_L39E" ]

[ 3244 ]

1

[ "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOM...

[ "R-BTA-156827", "R-BTA-1799339", "R-BTA-6791226", "R-BTA-72689", "R-BTA-72706", "R-BTA-975956", "R-BTA-975957", "R-CEL-156827", "R-CEL-1799339", "R-CEL-72689", "R-CEL-72706", "R-CEL-975956", "R-CEL-975957", "R-DME-156827", "R-DME-1799339", "R-DME-72689", "R-DME-72706", "R-DME-97595...

[ "REACTOME:R-BTA-156827", "REACTOME:R-BTA-1799339", "REACTOME:R-BTA-6791226", "REACTOME:R-BTA-72689", "REACTOME:R-BTA-72706", "REACTOME:R-BTA-975956", "REACTOME:R-BTA-975957", "REACTOME:R-CEL-156827", "REACTOME:R-CEL-1799339", "REACTOME:R-CEL-72689", "REACTOME:R-CEL-72706", "REACTOME:R-CEL-9759...

63

[ "1ffk", "1s72", "1vq4", "1vq5", "1vq6", "1vq7", "1vq8", "1vq9", "1vqk", "1vql", "1vqm", "1vqn", "1vqo", "1vqp", "1yhq", "1yi2", "1yij", "1yit", "1yj9", "1yjn", "1yjw", "2otj", "2otl", "2qa4", "2qex", "2ww9", "2wwa", "2wwb", "3cc2", "3cc4", "3cc7", "3cce"...

570

[ "PUB00007068", "PUB00007069", "PUB00007070", "PUB00151098", "PUB00151099" ]

[ "11297922", "11290319", "11114498", "34428590", "36517592" ]

[ "Atomic structures at last: the ribosome in 2000.", "The ribosome in focus.", "The end of the beginning: structural studies of ribosomal proteins.", "Deletion of ribosomal paralogs Rpl39 and Rpl39l compromises cell proliferation via protein synthesis and mitochondrial activity.", "A male germ-cell-specific ...

[ 2001, 2001, 2000, 2021, 2022 ]

5

[]

0

null

[ "Archaea", "Eukaryota", "Pantoea vagans", "unclassified sequences" ]

[ 544, 2697, 1, 2 ]

4

[ "Arabidopsis thaliana", "Caenorhabditis elegans", "Danio rerio", "Drosophila melanogaster", "Homo sapiens", "Mus musculus", "Oryza sativa subsp. japonica", "Rattus norvegicus", "Saccharomyces cerevisiae (strain ATCC 204508 / S288c)", "Schizosaccharomyces pombe (strain 972 / ATCC 24843)", "Zea ma...

[ 7, 1, 1, 2, 2, 3, 3, 9, 1, 1, 9 ]

11

true

Conserved_site

Large ribosomal subunit protein eL39, conserved site

Ribosomal_eL39_CS

6

IPR020084

20,084

NUDIX hydrolase, conserved site

NUDIX_hydrolase_CS

Conserved_site

198,975

false

null

[ "GO:0016787" ]

[ "hydrolase activity" ]

[ "molecular_function" ]

1

[ "PROSITE" ]

[ "PS00893" ]

[ "NUDIX_BOX" ]

[ 198975 ]

1

[ "EC", "EC", "METACYC", "METACYC", "METACYC", "METACYC", "METACYC", "METACYC", "METACYC", "METACYC", "METACYC", "METACYC", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "R...

[ "3.6.1", "3.6.1.-", "PWY-5757", "PWY-6147", "PWY-6383", "PWY-6797", "PWY-7206", "PWY-7419", "PWY-7539", "PWY-7719", "PWY-7821", "PWY-8289", "R-BTA-1855167", "R-BTA-196807", "R-BTA-3299685", "R-CEL-196807", "R-CEL-2393930", "R-CEL-3299685", "R-CEL-430039", "R-CEL-450385", "R-C...

[ "EC:3.6.1", "EC:3.6.1.-", "METACYC:PWY-5757", "METACYC:PWY-6147", "METACYC:PWY-6383", "METACYC:PWY-6797", "METACYC:PWY-7206", "METACYC:PWY-7419", "METACYC:PWY-7539", "METACYC:PWY-7719", "METACYC:PWY-7821", "METACYC:PWY-8289", "REACTOME:R-BTA-1855167", "REACTOME:R-BTA-196807", "REACTOME:R...

55

[ "1f3y", "1g0s", "1g9q", "1ga7", "1iry", "1jkn", "1jrk", "1k26", "1k2e", "1khz", "1kt9", "1ktg", "1mut", "1ppx", "1pun", "1puq", "1pus", "1q27", "1rya", "1sjy", "1soi", "1su2", "1sz3", "1tum", "1v8i", "1v8l", "1v8m", "1v8n", "1v8r", "1v8s", "1v8t", "1vc8"...

475

[ "PUB00002202", "PUB00002808", "PUB00003856", "PUB00004433", "PUB00006662", "PUB00006677" ]

[ "1328155", "8226881", "8170394", "8233837", "8810257", "10373642" ]

[ "The GO system protects organisms from the mutagenic effect of the spontaneous lesion 8-hydroxyguanine (7,8-dihydro-8-oxoguanine).", "Cloning and expression of cDNA for a human enzyme that hydrolyzes 8-oxo-dGTP, a mutagenic substrate for DNA synthesis.", "Characterization of the mutX gene of Streptococcus pneum...

[ 1992, 1993, 1994, 1993, 1996, 1999 ]

6

[]

0

null

[ "Archaea", "Bacteria", "Eukaryota", "Viruses", "unclassified sequences" ]

[ 3080, 157303, 35800, 460, 2332 ]

5

[ "Arabidopsis thaliana", "Caenorhabditis elegans", "Danio rerio", "Drosophila melanogaster", "Escherichia coli (strain K12)", "Homo sapiens", "Mus musculus", "Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987)", "Oryza sativa subsp. japonica", "Rattus norvegicus",...

[ 80, 8, 29, 11, 10, 22, 31, 9, 35, 39, 3, 4, 85 ]

13

true

Conserved_site

NUDIX hydrolase, conserved site

NUDIX_hydrolase_CS

7

IPR020085

20,085

DNA delivery protein, P32/P34

DNA_delivery_prot_P32/34

Family

18

false

This entry represents the DNA delivery proteins P32 and P34 that are found in the virion membrane. It is responsible for DNA delivery and viral infectivity [ ]. It is also required for DNA injection in the membrane transformation event. In Enterobacteria phage PRD1 virions, which are composed of a tail-less icosahedral...

[ "GO:0039641" ]

[ "viral inner membrane" ]

[ "cellular_component" ]

1

[ "PFAM" ]

[ "PF11087" ]

[ "PRD1_DD" ]

[ 18 ]

1

[]

0

[]

0

[ "PUB00046003" ]

[ "12453208" ]

[ "Sequential model of phage PRD1 DNA delivery: active involvement of the viral membrane." ]

[ 2002 ]

1

[]

0

null

[ "Tectiviridae" ]

[ 18 ]

1

[]

0

true

Family

DNA delivery protein, P32/P34

DNA_delivery_prot_P32/34

7

IPR020087

20,087

Protein of unknown function DUF5487

DUF5487

Family

166

false

This is a family of unknown function found in Myoviridae.

[]

0

[ "PFAM" ]

[ "PF17589" ]

[ "DUF5487" ]

[ 166 ]

1

[]

0

[]

0

[]

0

[]

0

null

[ "Viruses" ]

[ 166 ]

1

[]

0

true

Family

Protein of unknown function DUF5487

DUF5487

8

IPR020089

20,089

Pleiotrophin/Midkine, N-terminal domain

PTN/MK_N_dom

Domain

2,277

false

Several extracellular heparin-binding proteins involved in regulation of growth and differentiation belong to a new family of growth factors. These growth factors are highly related proteins of about 140 amino acids that contain 10 conserved cysteines probably involved in disulphide bonds, and include pleiotrophin [ ] ...

[ "GO:0008083" ]

[ "growth factor activity" ]

[ "molecular_function" ]

1

[ "PFAM" ]

[ "PF05196" ]

[ "PTN_MK_N" ]

[ 2277 ]

1

[ "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME" ]

[ "R-BTA-201556", "R-BTA-9851151", "R-GGA-201556", "R-GGA-9851151", "R-HSA-201556", "R-HSA-2979096", "R-HSA-9851151", "R-MMU-201556", "R-MMU-9851151", "R-RNO-201556", "R-RNO-9851151", "R-SSC-201556", "R-SSC-9851151", "R-XTR-2979096" ]

[ "REACTOME:R-BTA-201556", "REACTOME:R-BTA-9851151", "REACTOME:R-GGA-201556", "REACTOME:R-GGA-9851151", "REACTOME:R-HSA-201556", "REACTOME:R-HSA-2979096", "REACTOME:R-HSA-9851151", "REACTOME:R-MMU-201556", "REACTOME:R-MMU-9851151", "REACTOME:R-RNO-201556", "REACTOME:R-RNO-9851151", "REACTOME:R-S...

14

[ "1mkn", "2lut", "2luu", "2n6f", "8voh" ]

5

[ "PUB00015070", "PUB00015071", "PUB00015072", "PUB00020201" ]

[ "15047154", "7796887", "15121180", "9384573" ]

[ "Midkine, a heparin-binding cytokine, plays key roles in intraperitoneal adhesions.", "Retinoic acid-induced heparin binding protein (RIHB) binds to embryonal chondrocytes and cartilage primarily via proteoglycans.", "HB-GAM inhibits proliferation and enhances differentiation of neural stem cells.", "Solution...

[ 2004, 1995, 2004, 1997 ]

4

[]

0

null

[ "Bacteria", "Opisthokonta" ]

[ 2, 2275 ]

2

[ "Danio rerio", "Homo sapiens", "Mus musculus", "Rattus norvegicus" ]

[ 3, 8, 9, 10 ]

4

true

Domain

Pleiotrophin/Midkine, N-terminal domain

PTN/MK_N_dom

6

IPR020090

20,090

Pleiotrophin/Midkine, C-terminal domain

PTN/MK_C_dom

Domain

2,792

false

Several extracellular heparin-binding proteins involved in regulation of growth and differentiation belong to a new family of growth factors. These growth factors are highly related proteins of about 140 amino acids that contain 10 conserved cysteines probably involved in disulphide bonds, and include pleiotrophin [ ] ...

[ "GO:0008083" ]

[ "growth factor activity" ]

[ "molecular_function" ]

1

[ "PFAM" ]

[ "PF01091" ]

[ "PTN_MK_C" ]

[ 2792 ]

1

[ "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME" ]

[ "R-BTA-201556", "R-BTA-9851151", "R-GGA-201556", "R-GGA-9851151", "R-HSA-201556", "R-HSA-2979096", "R-HSA-9851151", "R-MMU-201556", "R-MMU-9851151", "R-RNO-201556", "R-RNO-9851151", "R-SSC-201556", "R-SSC-9851151", "R-XTR-2979096" ]

[ "REACTOME:R-BTA-201556", "REACTOME:R-BTA-9851151", "REACTOME:R-GGA-201556", "REACTOME:R-GGA-9851151", "REACTOME:R-HSA-201556", "REACTOME:R-HSA-2979096", "REACTOME:R-HSA-9851151", "REACTOME:R-MMU-201556", "REACTOME:R-MMU-9851151", "REACTOME:R-RNO-201556", "REACTOME:R-RNO-9851151", "REACTOME:R-S...

14

[ "1mkc", "2lut", "2luu", "2n6f", "8voi" ]

5

[ "PUB00015070", "PUB00015071", "PUB00015072", "PUB00020201" ]

[ "15047154", "7796887", "15121180", "9384573" ]

[ "Midkine, a heparin-binding cytokine, plays key roles in intraperitoneal adhesions.", "Retinoic acid-induced heparin binding protein (RIHB) binds to embryonal chondrocytes and cartilage primarily via proteoglycans.", "HB-GAM inhibits proliferation and enhances differentiation of neural stem cells.", "Solution...

[ 2004, 1995, 2004, 1997 ]

4

[]

0

null

[ "Ciceribacter ferrooxidans", "Eukaryota" ]

[ 1, 2791 ]

2

[ "Danio rerio", "Drosophila melanogaster", "Homo sapiens", "Mus musculus", "Rattus norvegicus" ]

[ 3, 7, 6, 10, 10 ]

5

true

Domain

Pleiotrophin/Midkine, C-terminal domain

PTN/MK_C_dom

4

IPR020091

20,091

Pleiotrophin/Midkine disulphide-rich domain superfamily

PTN/MK_diS_sf

Homologous_superfamily

2,490

false

Several extracellular heparin-binding proteins involved in regulation of growth and differentiation belong to a new family of growth factors. These growth factors are highly related proteins of about 140 amino acids that contain 10 conserved cysteines probably involved in disulphide bonds, and include pleiotrophin [ ] ...

[ "GO:0008083" ]

[ "growth factor activity" ]

[ "molecular_function" ]

1

[ "SSF" ]

[ "SSF57288" ]

[ "" ]

[ 2490 ]

1

[ "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME" ]

[ "R-BTA-201556", "R-BTA-9851151", "R-GGA-201556", "R-GGA-9851151", "R-HSA-201556", "R-HSA-2979096", "R-HSA-9851151", "R-MMU-201556", "R-MMU-9851151", "R-RNO-201556", "R-RNO-9851151", "R-SSC-201556", "R-SSC-9851151", "R-XTR-2979096" ]

[ "REACTOME:R-BTA-201556", "REACTOME:R-BTA-9851151", "REACTOME:R-GGA-201556", "REACTOME:R-GGA-9851151", "REACTOME:R-HSA-201556", "REACTOME:R-HSA-2979096", "REACTOME:R-HSA-9851151", "REACTOME:R-MMU-201556", "REACTOME:R-MMU-9851151", "REACTOME:R-RNO-201556", "REACTOME:R-RNO-9851151", "REACTOME:R-S...

14

[ "1mkc", "1mkn", "2lut", "2luu", "2n6f", "8voh", "8voi" ]

7

[ "PUB00015070", "PUB00015071", "PUB00015072", "PUB00020201" ]

[ "15047154", "7796887", "15121180", "9384573" ]

[ "Midkine, a heparin-binding cytokine, plays key roles in intraperitoneal adhesions.", "Retinoic acid-induced heparin binding protein (RIHB) binds to embryonal chondrocytes and cartilage primarily via proteoglycans.", "HB-GAM inhibits proliferation and enhances differentiation of neural stem cells.", "Solution...

[ 2004, 1995, 2004, 1997 ]

4

[]

0

null

[ "Bilateria", "Ciceribacter ferrooxidans" ]

[ 2489, 1 ]

2

[ "Danio rerio", "Homo sapiens", "Mus musculus", "Rattus norvegicus" ]

[ 3, 8, 11, 10 ]

4

true

Homologous_superfamily

Pleiotrophin/Midkine disulphide-rich domain superfamily

PTN/MK_diS_sf

8

IPR020092

20,092

Pleiotrophin/Midkine heparin-binding growth factor, conserved site

PTN_MK_heparin-bd_GF_CS

Conserved_site

1,476

false

Several extracellular heparin-binding proteins involved in regulation of growth and differentiation belong to a new family of growth factors. These growth factors are highly related proteins of about 140 amino acids that contain 10 conserved cysteines probably involved in disulphide bonds, and include pleiotrophin [ ] ...

[ "GO:0008083" ]

[ "growth factor activity" ]

[ "molecular_function" ]

1

[ "PROSITE", "PROSITE" ]

[ "PS00619", "PS00620" ]

[ "PTN_MK_1", "PTN_MK_2" ]

[ 1212, 1416 ]

2

[ "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME" ]

[ "R-BTA-201556", "R-BTA-9851151", "R-GGA-201556", "R-GGA-9851151", "R-HSA-201556", "R-HSA-2979096", "R-HSA-9851151", "R-MMU-201556", "R-MMU-9851151", "R-RNO-201556", "R-RNO-9851151", "R-SSC-201556", "R-SSC-9851151", "R-XTR-2979096" ]

[ "REACTOME:R-BTA-201556", "REACTOME:R-BTA-9851151", "REACTOME:R-GGA-201556", "REACTOME:R-GGA-9851151", "REACTOME:R-HSA-201556", "REACTOME:R-HSA-2979096", "REACTOME:R-HSA-9851151", "REACTOME:R-MMU-201556", "REACTOME:R-MMU-9851151", "REACTOME:R-RNO-201556", "REACTOME:R-RNO-9851151", "REACTOME:R-S...

14

[ "1mkn", "2n6f", "8voh" ]

3

[ "PUB00015070", "PUB00015071", "PUB00015072" ]

[ "15047154", "7796887", "15121180" ]

[ "Midkine, a heparin-binding cytokine, plays key roles in intraperitoneal adhesions.", "Retinoic acid-induced heparin binding protein (RIHB) binds to embryonal chondrocytes and cartilage primarily via proteoglycans.", "HB-GAM inhibits proliferation and enhances differentiation of neural stem cells." ]

[ 2004, 1995, 2004 ]

3

[]

0

null

[ "Ciceribacter ferrooxidans", "Vertebrata" ]

[ 1, 1475 ]

2

[ "Homo sapiens", "Mus musculus", "Rattus norvegicus" ]

[ 6, 9, 10 ]

3

true

Conserved_site

Pleiotrophin/Midkine heparin-binding growth factor, conserved site

PTN_MK_heparin-bd_GF_CS

2

IPR020094

20,094

Pseudouridine synthase TruA/RsuA/RluB/E/F, N-terminal

TruA/RsuA/RluB/E/F_N

Homologous_superfamily

93,705

false

Pseudouridine synthases catalyse the isomerisation of uridine to pseudouridine (Psi) in a variety of RNA molecules, and may function as RNA chaperones. Pseudouridine is the most abundant modified nucleotide found in all cellular RNAs. There are four distinct families of pseudouridine synthases that share no global sequ...

[ "GO:0003723", "GO:0009982" ]

[ "RNA binding", "pseudouridine synthase activity" ]

[ "molecular_function", "molecular_function" ]

2

[ "CATHGENE3D" ]

[ "G3DSA:3.30.70.580" ]

[ "" ]

[ 93705 ]

1

[ "EC", "EC", "REACTOME", "REACTOME" ]

[ "5.4.99", "5.4.99.12", "R-HSA-6782315", "R-HSA-6787450" ]

[ "EC:5.4.99", "EC:5.4.99.12", "REACTOME:R-HSA-6782315", "REACTOME:R-HSA-6787450" ]

4

[ "1dj0", "1ksk", "1ksl", "1ksv", "1vio", "1vs3", "2gml", "2nqp", "2nr0", "2nre", "2olw", "2oml", "3dh3", "4iqm", "4its", "4j37", "4nz6", "4nz7", "7r9f", "7r9g", "8okd", "8q70", "9enb", "9enc", "9ene", "9enf", "9f9q" ]

27

[ "PUB00000455", "PUB00015686", "PUB00018355", "PUB00037953", "PUB00042017", "PUB00045922", "PUB00092579" ]

[ "9585540", "10625422", "11953756", "16511038", "17466622", "10529181", "19664587" ]

[ "Transfer RNA-pseudouridine synthetase Pus1 of Saccharomyces cerevisiae contains one atom of zinc essential for its native conformation and tRNA recognition.", "The structural basis for tRNA recognition and pseudouridine formation by pseudouridine synthase I.", "Structure of the 16S rRNA pseudouridine synthase ...

[ 1998, 2000, 2002, 2005, 2007, 1999, 2009 ]

7

[]

0

null

[ "Archaea", "Bacteria", "Eukaryota", "unclassified Caudoviricetes", "unclassified sequences" ]

[ 684, 75757, 16040, 2, 1222 ]

5

[ "Arabidopsis thaliana", "Caenorhabditis elegans", "Danio rerio", "Drosophila melanogaster", "Escherichia coli (strain K12)", "Homo sapiens", "Mus musculus", "Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987)", "Oryza sativa subsp. japonica", "Rattus norvegicus",...

[ 43, 3, 6, 6, 4, 14, 8, 3, 20, 10, 3, 4, 43 ]

13

true

Homologous_superfamily

Pseudouridine synthase TruA/RsuA/RluB/E/F, N-terminal

TruA/RsuA/RluB/E/F_N

7

IPR020095

20,095

Pseudouridine synthase I, TruA, C-terminal

PsdUridine_synth_TruA_C

Homologous_superfamily

43,625

false

Pseudouridine synthases catalyse the isomerisation of uridine to pseudouridine (Psi) in a variety of RNA molecules, and may function as RNA chaperones. Pseudouridine is the most abundant modified nucleotide found in all cellular RNAs. There are four distinct families of pseudouridine synthases that share no global sequ...

[ "GO:0003723", "GO:0009982" ]

[ "RNA binding", "pseudouridine synthase activity" ]

[ "molecular_function", "molecular_function" ]

2

[ "CATHGENE3D" ]

[ "G3DSA:3.30.70.660" ]

[ "" ]

[ 43625 ]

1

[ "EC", "EC", "REACTOME", "REACTOME" ]

[ "5.4.99", "5.4.99.12", "R-HSA-6782315", "R-HSA-6787450" ]

[ "EC:5.4.99", "EC:5.4.99.12", "REACTOME:R-HSA-6782315", "REACTOME:R-HSA-6787450" ]

4

[ "1dj0", "1vs3", "2nqp", "2nr0", "2nre", "4iqm", "4its", "4j37", "4nz6", "4nz7", "6sga", "6sgb", "7r9f", "7r9g", "8okd", "8q70", "9enb", "9enc", "9ene", "9enf", "9f9q", "9hny" ]

22

[ "PUB00000455", "PUB00015686", "PUB00042017", "PUB00045922", "PUB00092579" ]

[ "9585540", "10625422", "17466622", "10529181", "19664587" ]

[ "Transfer RNA-pseudouridine synthetase Pus1 of Saccharomyces cerevisiae contains one atom of zinc essential for its native conformation and tRNA recognition.", "The structural basis for tRNA recognition and pseudouridine formation by pseudouridine synthase I.", "How U38, 39, and 40 of many tRNAs become the targ...

[ 1998, 2000, 2007, 1999, 2009 ]

5

[]

0

null

[ "Archaea", "Bacteria", "Eukaryota", "unclassified Caudoviricetes", "unclassified sequences" ]

[ 684, 27337, 15030, 2, 572 ]

5

[ "Arabidopsis thaliana", "Caenorhabditis elegans", "Danio rerio", "Drosophila melanogaster", "Escherichia coli (strain K12)", "Homo sapiens", "Mus musculus", "Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987)", "Oryza sativa subsp. japonica", "Rattus norvegicus",...

[ 40, 5, 7, 5, 1, 9, 6, 3, 18, 12, 3, 4, 45 ]

13

true

Homologous_superfamily

Pseudouridine synthase I, TruA, C-terminal

PsdUridine_synth_TruA_C

9

IPR020097

20,097

Pseudouridine synthase I, TruA, alpha/beta domain

PsdUridine_synth_TruA_a/b_dom

Domain

43,258

false

Pseudouridine synthases catalyse the isomerisation of uridine to pseudouridine (Psi) in a variety of RNA molecules, and may function as RNA chaperones. Pseudouridine is the most abundant modified nucleotide found in all cellular RNAs. There are four distinct families of pseudouridine synthases that share no global sequ...

[ "GO:0003723", "GO:0009982", "GO:0001522", "GO:0009451" ]

[ "RNA binding", "pseudouridine synthase activity", "pseudouridine synthesis", "RNA modification" ]

[ "molecular_function", "molecular_function", "biological_process", "biological_process" ]

4

[ "PFAM" ]

[ "PF01416" ]

[ "PseudoU_synth_1" ]

[ 43258 ]

1

[ "EC", "EC", "REACTOME", "REACTOME" ]

[ "5.4.99", "5.4.99.12", "R-HSA-6782315", "R-HSA-6787450" ]

[ "EC:5.4.99", "EC:5.4.99.12", "REACTOME:R-HSA-6782315", "REACTOME:R-HSA-6787450" ]

4

[ "1dj0", "1vs3", "2nqp", "2nr0", "2nre", "4iqm", "4its", "4j37", "4nz6", "4nz7", "6sga", "6sgb", "7r9f", "7r9g", "8okd", "8q70", "9enb", "9enc", "9ene", "9enf", "9f9q", "9hny" ]

22

[ "PUB00000455", "PUB00015686", "PUB00042017", "PUB00045922", "PUB00092579" ]

[ "9585540", "10625422", "17466622", "10529181", "19664587" ]

[ "Transfer RNA-pseudouridine synthetase Pus1 of Saccharomyces cerevisiae contains one atom of zinc essential for its native conformation and tRNA recognition.", "The structural basis for tRNA recognition and pseudouridine formation by pseudouridine synthase I.", "How U38, 39, and 40 of many tRNAs become the targ...

[ 1998, 2000, 2007, 1999, 2009 ]

5

[]

0

null

[ "Archaea", "Bacteria", "Eukaryota", "unclassified Caudoviricetes", "unclassified sequences" ]

[ 686, 27495, 14476, 2, 599 ]

5

[ "Arabidopsis thaliana", "Caenorhabditis elegans", "Danio rerio", "Drosophila melanogaster", "Escherichia coli (strain K12)", "Homo sapiens", "Mus musculus", "Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987)", "Oryza sativa subsp. japonica", "Rattus norvegicus",...

[ 37, 4, 7, 5, 1, 9, 6, 3, 18, 13, 3, 4, 45 ]

13

true

Domain

Pseudouridine synthase I, TruA, alpha/beta domain

PsdUridine_synth_TruA_a/b_dom

9

IPR020099

20,099

Protein of unknown function DUF5445

DUF5445

Family

65

false

This is a family of unknown function found in Enterobacteriaceae.

[]

0

[ "PFAM" ]

[ "PF17520" ]

[ "DUF5445" ]

[ 65 ]

1

[]

0

[]

0

[]

0

[]

0

null

[ "Enterobacteriaceae", "human gut metagenome" ]

[ 64, 1 ]

2

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Protein of unknown function DUF5445

DUF5445

9

IPR020103

20,103

Pseudouridine synthase, catalytic domain superfamily

PsdUridine_synth_cat_dom_sf

Homologous_superfamily

255,000

false

Pseudouridine synthases catalyse the isomerisation of uridine to pseudouridine (Psi) in a variety of RNA molecules, and may function as RNA chaperones. Pseudouridine is the most abundant modified nucleotide found in all cellular RNAs. There are four distinct families of pseudouridine synthases that share no global sequ...

[ "GO:0003723", "GO:0009982", "GO:0001522", "GO:0009451" ]

[ "RNA binding", "pseudouridine synthase activity", "pseudouridine synthesis", "RNA modification" ]

[ "molecular_function", "molecular_function", "biological_process", "biological_process" ]

4

[ "SSF" ]

[ "SSF55120" ]

[ "" ]

[ 255000 ]

1

[ "EC", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME" ]

[ "5.4.99", "R-CEL-171319", "R-DDI-171319", "R-DME-171319", "R-GGA-417076", "R-HSA-171319", "R-HSA-6782315", "R-HSA-6787450", "R-HSA-6790901", "R-HSA-6793080", "R-HSA-9937008", "R-MMU-171319", "R-RNO-171319", "R-SCE-171319", "R-SPO-171319" ]

[ "EC:5.4.99", "REACTOME:R-CEL-171319", "REACTOME:R-DDI-171319", "REACTOME:R-DME-171319", "REACTOME:R-GGA-417076", "REACTOME:R-HSA-171319", "REACTOME:R-HSA-6782315", "REACTOME:R-HSA-6787450", "REACTOME:R-HSA-6790901", "REACTOME:R-HSA-6793080", "REACTOME:R-HSA-9937008", "REACTOME:R-MMU-171319", ...

15

[ "1dj0", "1k8w", "1ksk", "1ksl", "1ksv", "1prz", "1qyu", "1r3e", "1r3f", "1sb7", "1sgv", "1si7", "1szw", "1v9f", "1v9k", "1vio", "1vs3", "1xpi", "1z2z", "1ze1", "1ze2", "1zl3", "2ab4", "2apo", "2aus", "2ey4", "2gml", "2hvy", "2i82", "2ist", "2nqp", "2nr0"...

89

[ "PUB00000455", "PUB00015686", "PUB00015731", "PUB00018355", "PUB00026665", "PUB00032035", "PUB00037409", "PUB00042017", "PUB00045922", "PUB00092579" ]

[ "9585540", "10625422", "15135053", "11953756", "11779468", "15078091", "14659742", "17466622", "10529181", "19664587" ]

[ "Transfer RNA-pseudouridine synthetase Pus1 of Saccharomyces cerevisiae contains one atom of zinc essential for its native conformation and tRNA recognition.", "The structural basis for tRNA recognition and pseudouridine formation by pseudouridine synthase I.", "X-ray structure of tRNA pseudouridine synthase Tr...

[ 1998, 2000, 2004, 2002, 2001, 2004, 2004, 2007, 1999, 2009 ]

10

[]

0

null

[ "Archaea", "Bacteria", "Eukaryota", "Viruses", "unclassified sequences" ]

[ 3513, 191991, 56108, 21, 3367 ]

5

[ "Arabidopsis thaliana", "Caenorhabditis elegans", "Danio rerio", "Drosophila melanogaster", "Escherichia coli (strain K12)", "Homo sapiens", "Mus musculus", "Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987)", "Oryza sativa subsp. japonica", "Rattus norvegicus",...

[ 110, 12, 37, 18, 11, 70, 37, 7, 72, 57, 10, 8, 171 ]

13

true

Homologous_superfamily

Pseudouridine synthase, catalytic domain superfamily

PsdUridine_synth_cat_dom_sf

6

IPR020104

20,104

Protein of unknown function DUF5438

DUF5438

Family

17

false

This is a family of unknown function found in Orthopoxvirus.

[]

0

[ "PFAM" ]

[ "PF17506" ]

[ "DUF5438" ]

[ 17 ]

1

[]

0

[]

0

[]

0

[]

0

null

[ "Orthopoxvirus" ]

[ 17 ]

1

[]

0

true

Family

Protein of unknown function DUF5438

DUF5438

1