LiteFold/InterPro · Datasets at Hugging Face

IPR010086

10,086

Flavodoxin, long chain

Flavodoxin_lc

Family

6,633

false

Flavodoxins are small redox-active proteins with a flavin mononucleotide (FMN) prosthetic group. They function as electron transfer agents in a variety of microbial metabolic processes, including nitrogen fixation by nitrogenase [ ], sulphite reduction [ ], and light-dependent NADP+ reduction during photosynthesis [ ]....

[ "GO:0010181" ]

[ "FMN binding" ]

[ "molecular_function" ]

1

[ "PIRSF", "NCBIFAM" ]

[ "PIRSF038996", "TIGR01752" ]

[ "FldA", "flav_long" ]

[ 6540, 6519 ]

2

[]

0

[ "1ag9", "1ahn", "1czh", "1czk", "1czl", "1czn", "1czo", "1czr", "1czu", "1d03", "1d04", "1dx9", "1flv", "1ftg", "1fue", "1obo", "1obv", "1ofv", "1qhe", "1rcf", "1yob", "2bmv", "2fcr", "2kqu", "2mok", "2mt9", "2mtb", "2v5u", "2v5v", "2w5u", "2wc1", "3esx"...

44

[ "PUB00014352", "PUB00014920", "PUB00014921", "PUB00014922", "PUB00083903" ]

[ "10860732", "8226618", "11687213", "12234497", "15317816" ]

[ "Four crystal structures of the 60 kDa flavoprotein monomer of the sulfite reductase indicate a disordered flavodoxin-like module.", "Purification and properties of a nif-specific flavodoxin from the photosynthetic bacterium Rhodobacter capsulatus.", "Ferredoxin and flavodoxin reduction by photosystem I.", "E...

[ 2000, 1993, 2001, 2002, 2004 ]

5

[]

0

null

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

[ 14, 6457, 129, 33 ]

4

[ "Escherichia coli (strain K12)" ]

[ 2 ]

1

true

Family

Flavodoxin, long chain

Flavodoxin_lc

2

IPR010087

10,087

Flavodoxin, short chain

Flav_short

Family

3,284

false

Flavodoxins are small redox-active proteins with a flavin mononucleotide (FMN) prosthetic group. They function as electron transfer agents in a variety of microbial metabolic processes, including nitrogen fixation by nitrogenase [ ], sulphite reduction [ ], and light-dependent NADP+ reduction during photosynthesis [ ]....

[ "GO:0010181" ]

[ "FMN binding" ]

[ "molecular_function" ]

1

[ "NCBIFAM" ]

[ "TIGR01753" ]

[ "flav_short" ]

[ 3284 ]

1

[]

0

[ "1akq", "1akr", "1akt", "1aku", "1akv", "1akw", "1azl", "1bu5", "1c7e", "1c7f", "1f4p", "1fla", "1fld", "1fln", "1fvx", "1fx1", "1i1o", "1j8q", "1j9e", "1j9g", "1wsb", "1wsw", "1xt6", "1xyv", "1xyy", "2fax", "2fdx", "2flv", "2fox", "2fvx", "2fx2", "2fz5"...

71

[ "PUB00014352", "PUB00014920", "PUB00014921", "PUB00083903" ]

[ "10860732", "8226618", "11687213", "15317816" ]

[ "Four crystal structures of the 60 kDa flavoprotein monomer of the sulfite reductase indicate a disordered flavodoxin-like module.", "Purification and properties of a nif-specific flavodoxin from the photosynthetic bacterium Rhodobacter capsulatus.", "Ferredoxin and flavodoxin reduction by photosystem I.", "T...

[ 2000, 1993, 2001, 2004 ]

4

[]

0

null

[ "Archaea", "Bacteria", "Phytophthora kernoviae 00238/432", "Podoviridae sp. ctZ5d16", "metagenomes" ]

[ 14, 3251, 1, 1, 17 ]

5

[]

0

true

Family

Flavodoxin, short chain

Flav_short

7

IPR010088

10,088

Ribonucleotide reductase-associated flavodoxin, putative

RNR_flavodoxin

Family

298

false

This entry represents a family of proteins found immediately downstream of ribonucleotide reductase genes in Xyella fastidiosa and some Gram-positive bacteria. It appears to be a highly divergent flavodoxin of the short chain type, more like the flavodoxins of the sulphate-reducing genus Desulfovibrio than like the Nif...

[]

0

[ "NCBIFAM" ]

[ "TIGR01754" ]

[ "flav_RNR" ]

[ 298 ]

1

[ "GP" ]

[ "GenProp0289" ]

[ "GP:GenProp0289" ]

1

[]

0

[]

0

[]

0

null

[ "Bacteria" ]

[ 298 ]

1

[]

0

true

Family

Ribonucleotide reductase-associated flavodoxin, putative

RNR_flavodoxin

8

IPR010090

10,090

Phage tail tape measure protein

Phage_tape_meas

Domain

16,835

false

This entry represents a reasonably well conserved core region of a family of phage tail proteins. The member from phage TP901-1 was characterised as a tail length tape measure protein in that a shortened form of the protein leads to phage with proportionately shorter tails [ ].

[]

0

[ "PFAM", "NCBIFAM" ]

[ "PF10145", "TIGR01760" ]

[ "PhageMin_Tail", "tape_meas_TP901" ]

[ 16041, 14509 ]

2

[ "GP" ]

[ "GenProp0208" ]

[ "GP:GenProp0208" ]

1

[ "9g8s" ]

1

[ "PUB00010241" ]

[ "11040123" ]

[ "Mutational analysis of two structural genes of the temperate lactococcal bacteriophage TP901-1 involved in tail length determination and baseplate assembly." ]

[ 2000 ]

1

[]

0

null

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

[ 68, 15005, 67, 1259, 436 ]

5

[]

0

true

Domain

Phage tail tape measure protein

Phage_tape_meas

4

IPR010091

10,091

Thiazolinyl imide reductase

Thiazolinyl_imide_reductase

Family

1,041

false

This reductase is found associated with gene clusters for the biosynthesis of various non-ribosomal peptide derived natural products in which cysteine is cyclised to a thiazoline ring containing an imide double bond. Examples include yersiniabactin and pyochelin. Yersiniabactin is a virulence factor secreted by Yersini...

[]

0

[ "PIRSF", "NCBIFAM" ]

[ "PIRSF017494", "TIGR01761" ]

[ "Thiaz_red", "thiaz-red" ]

[ 505, 1041 ]

2

[ "GP" ]

[ "GenProp1462" ]

[ "GP:GenProp1462" ]

1

[ "4gmf", "4gmg", "5kvq", "5kvs" ]

4

[ "PUB00013137" ]

[ "11927258" ]

[ "Yersiniabactin synthetase: a four-protein assembly line producing the nonribosomal peptide/polyketide hybrid siderophore of Yersinia pestis." ]

[ 2002 ]

1

[]

0

null

[ "Bacteria", "Beauveria bassiana D1-5", "organismal metagenomes" ]

[ 1036, 1, 4 ]

3

[]

0

true

Family

Thiazolinyl imide reductase

Thiazolinyl_imide_reductase

1

IPR010092

10,092

Chlorinating enzyme

Chlorin_enz

Family

461

false

This entry represents a group of highly homologous enzymes related to dioxygenases which chlorinate amino acid methyl groups. L-threonyl-[L-threonyl-carrier protein] 4-chlorinase (SyrB2) chlorinates the methyl group of threonine in the biosynthesis of syringomycin in Pseudomonas syringae in a reaction that requires oxy...

[]

0

[ "NCBIFAM" ]

[ "TIGR01762" ]

[ "chlorin-enz" ]

[ 461 ]

1

[]

0

[ "2fct", "2fcu", "2fcv", "3gja", "3gjb" ]

5

[ "PUB00013788", "PUB00013826", "PUB00040622", "PUB00100319", "PUB00100320", "PUB00100321" ]

[ "7608074", "12383521", "16541079", "19245217", "16002467", "16528784" ]

[ "Analysis of the syrB and syrC genes of Pseudomonas syringae pv. syringae indicates that syringomycin is synthesized by a thiotemplate mechanism.", "The barbamide biosynthetic gene cluster: a novel marine cyanobacterial system of mixed polyketide synthase (PKS)-non-ribosomal peptide synthetase (NRPS) origin invol...

[ 1995, 2002, 2006, 2009, 2005, 2006 ]

6

[ "IPR008775" ]

[]

1

0

1

[ "Bacteria", "marine sediment metagenome" ]

[ 460, 1 ]

2

[]

0

true

Family

Chlorinating enzyme

Chlorin_enz

7

IPR010093

10,093

SinI-like, DNA-binding domain

SinI_DNA-bd

Domain

44,528

false

This putative DNA-binding domain is found N-terminal in the modification methylase SinI [ ], transcriptional repressor DcmR [ ] and in other uncharacterised proteins.

[ "GO:0003677" ]

[ "DNA binding" ]

[ "molecular_function" ]

1

[ "NCBIFAM" ]

[ "TIGR01764" ]

[ "excise" ]

[ 44528 ]

1

[]

0

[ "4j2n", "6ama", "6amk" ]

3

[ "PUB00058163", "PUB00071525" ]

[ "1938878", "2836359" ]

[ "Identification of dcmR, the regulatory gene governing expression of dichloromethane dehalogenase in Methylobacterium sp. strain DM4.", "Cloning and complete nucleotide sequences of the type II restriction-modification genes of Salmonella infantis." ]

[ 1991, 1988 ]

2

[ "IPR041657" ]

[]

1

0

1

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

[ 326, 42671, 19, 560, 952 ]

5

[]

0

true

Domain

SinI-like, DNA-binding domain

SinI_DNA-bd

2

IPR010094

10,094

Transposase (putative), N-terminal

Transposase_put_N

Domain

410

false

This entry represents the N-terminal region of a family of putative transposases found in the largest copy number in Thermoanaerobacter tengcongensis. The three homologues in Bacillus anthracis are each split into two ORFs and this entry represents the upstream ORF.

[]

0

[ "NCBIFAM" ]

[ "TIGR01765" ]

[ "tspaseT_teng_N" ]

[ 410 ]

1

[]

0

[]

0

[]

0

[]

0

null

[ "Archaea", "Bacteria" ]

[ 75, 335 ]

2

[]

0

true

Domain

Transposase (putative), N-terminal

Transposase_put_N

4

IPR010095

10,095

Cas12f1-like, TNB domain

Cas12f1-like_TNB

Domain

43,251

false

This entry represents a zinc ribbon domain known as the target nucleic acid-binding (TNB) domain of CRISPR-associated endodeoxyribonuclease Cas12f1 [ ] and similar sequences found in all domains in life. This domain is also found in bacterial transposases, including putative transposes described by . Some proteins cont...

[]

0

[ "PFAM", "NCBIFAM" ]

[ "PF07282", "TIGR01766" ]

[ "Cas12f1-like_TNB", "" ]

[ 41380, 26186 ]

2

[]

0

[ "6xmf", "6xmg", "7c7l", "7l48", "7l49", "7lys", "7lyt", "7m5o", "7odf", "7wju", "8bf8", "8dzj", "8ex9", "8exa", "8h1j", "8hr5", "8i16", "8i3q", "8iaz", "8iew", "8inb", "8j12", "8j1j", "8j3r", "8wrp", "8wrq", "8wrr", "8wrs", "8wrt", "8wru", "8ws6", "8ws7"...

48

[ "PUB00103939", "PUB00154414" ]

[ "33333018", "38261981" ]

[ "Structure of the miniature type V-F CRISPR-Cas effector enzyme.", "Innate programmable DNA binding by CRISPR-Cas12m effectors enable efficient base editing." ]

[ 2021, 2024 ]

2

[]

0

null

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

[ 6587, 34330, 1398, 382, 554 ]

5

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Domain

Cas12f1-like, TNB domain

Cas12f1-like_TNB

4

IPR010098

10,098

Glycyl radical enzyme, PFL2/glycerol dehydratase family

PFL2/GDeHydtase_fam

Family

3,460

false

This family previously was designated pyruvate formate-lyase, but it now appears that members include the B12-independent glycerol dehydratase. This family includes the YbiW and PflD proteins of E. coli, described as isoforms of pyruvate-formate lyase found in a limited number additional species. PFL catalyses the reac...

[]

0

[ "NCBIFAM" ]

[ "TIGR01774" ]

[ "PFL2-3" ]

[ 3460 ]

1

[ "GP" ]

[ "GenProp0943" ]

[ "GP:GenProp0943" ]

1

[ "1r8w", "1r9d", "2f3o", "4mtj", "6xs4", "8id0", "8id1", "8id7", "8yjn", "8yjo", "9rco", "9rcp", "9rcq", "9rcr" ]

14

[ "PUB00090957", "PUB00103660" ]

[ "28183913", "32571930" ]

[ "A prominent glycyl radical enzyme in human gut microbiomes metabolizes trans-4-hydroxy-l-proline.", "Two radical-dependent mechanisms for anaerobic degradation of the globally abundant organosulfur compound dihydroxypropanesulfonate." ]

[ 2017, 2020 ]

2

[]

0

null

[ "Bacteria", "Methanobacteriota", "Opisthokonta", "ecological metagenomes" ]

[ 3437, 14, 4, 5 ]

4

[ "Escherichia coli (strain K12)" ]

[ 2 ]

1

true

Family

Glycyl radical enzyme, PFL2/glycerol dehydratase family

PFL2/GDeHydtase_fam

9

IPR010099

10,099

Epimerase family protein SDR39U1

SDR39U1

Family

18,808

false

This entry represents Epimerase family protein SDR39U1, which is a family of conserved proteins with NAD(P)-binding Rossmann-fold domain.

[]

0

[ "NCBIFAM" ]

[ "TIGR01777" ]

[ "yfcH" ]

[ 18808 ]

1

[]

0

[ "3oh8", "4b4o" ]

2

[]

0

[]

0

null

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

[ 22, 16435, 2083, 268 ]

4

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

[ 3, 1, 10, 1, 3, 1, 3, 4, 9 ]

9

true

Family

Epimerase family protein SDR39U1

SDR39U1

5

IPR010100

10,100

TonB-dependent copper receptor

TonB-dep_Cu_rcpt

Family

2,169

false

This entry represents a family of proteobacterial TonB-dependent outer membrane receptor/transporters which bind and translocate copper ions. Two characterised members of this family exist, outer membrane protein C (OprC) from Pseudomonas aeruginosa [ ] and NosA from Pseudomonas stutzeri, which is responsible for provi...

[]

0

[ "NCBIFAM" ]

[ "TIGR01778" ]

[ "TonB-copper" ]

[ 2169 ]

1

[]

0

[ "6fok", "6fom", "6z8q", "6z8r", "6z8s", "6z8t", "6z8u", "6z8y", "6z8z", "6z91", "6z99", "6z9n", "6z9y" ]

13

[ "PUB00013808", "PUB00013837" ]

[ "8760927", "1885521" ]

[ "Protein C (OprC) of the outer membrane of Pseudomonas aeruginosa is a copper-regulated channel protein.", "Molecular characterization of nosA, a Pseudomonas stutzeri gene encoding an outer membrane protein required to make copper-containing N2O reductase." ]

[ 1996, 1991 ]

2

[ "IPR039426" ]

[]

1

0

1

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

[ 2156, 4, 9 ]

3

[]

0

true

Family

TonB-dependent copper receptor

TonB-dep_Cu_rcpt

4

IPR010101

10,101

TonB-dependent vitamin B12 transporter BtuB

B12_transptr_BtuB

Family

2,492

false

The outer membrane is an essential component of Gram-negative bacteria, providing them with increased resistance to antibiotics, digestive enzymes, detergents and immune surveillance [ ]. The outer membrane is permeable to small hydrophilic molecules because of the presence of aqueous diffusion channels (e.g. porins). ...

[ "GO:0015420", "GO:0015889", "GO:0016020" ]

[ "ABC-type vitamin B12 transporter activity", "cobalamin transport", "membrane" ]

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

3

[ "HAMAP", "NCBIFAM" ]

[ "MF_01531", "TIGR01779" ]

[ "BtuB", "TonB-B12" ]

[ 1843, 2219 ]

2

[ "GP" ]

[ "GenProp1157" ]

[ "GP:GenProp1157" ]

1

[ "1nqe", "1nqf", "1nqg", "1nqh", "1ujw", "2gsk", "2guf", "2ysu", "3m8b", "3m8d", "3rgm", "3rgn", "7nsu" ]

13

[ "PUB00006673", "PUB00014980", "PUB00014981", "PUB00014982", "PUB00014984", "PUB00014986", "PUB00060298", "PUB00060299" ]

[ "9886293", "14499604", "9865695", "9856937", "12652322", "11872840", "4579869", "1254550" ]

[ "Crystal structure of the outer membrane active transporter FepA from Escherichia coli.", "The Escherichia coli outer membrane cobalamin transporter BtuB: structural analysis of calcium and substrate binding, and identification of orthologous transporters by sequence/structure conservation.", "Transmembrane sig...

[ 1999, 2003, 1998, 1998, 2003, 2002, 1973, 1976 ]

8

[ "IPR039426" ]

[]

1

0

1

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

[ 2486, 2, 4 ]

3

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

TonB-dependent vitamin B12 transporter BtuB

B12_transptr_BtuB

2

IPR010102

10,102

Succinate semialdehyde dehydrogenase

Succ_semiAld_DH

Family

16,350

false

Succinate semialdehyde dehydrogenase (SSADH) is one of three enzymes constituting 4-aminobutyrate (GABA) degradation in both prokaryotes and eukaryotes, catalysing the (NAD(P)+)-dependent catabolism reaction of succinate semialdehyde to succinate for metabolism by the citric acid cycle. In Escherichia coli, SSADH is lo...

[ "GO:0009013", "GO:0009450" ]

[ "succinate-semialdehyde dehydrogenase [NAD(P)+] activity", "gamma-aminobutyric acid catabolic process" ]

[ "molecular_function", "biological_process" ]

2

[ "NCBIFAM" ]

[ "TIGR01780" ]

[ "SSADH" ]

[ 16350 ]

1

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

[ "1.2.1", "GenProp0231", "GenProp0233", "GenProp1288", "GenProp1506", "GenProp1523", "GenProp1579", "R-HSA-916853", "R-MMU-916853", "R-RNO-916853", "R-SCE-916853", "R-SPO-916853" ]

[ "EC:1.2.1", "GP:GenProp0231", "GP:GenProp0233", "GP:GenProp1288", "GP:GenProp1506", "GP:GenProp1523", "GP:GenProp1579", "REACTOME:R-HSA-916853", "REACTOME:R-MMU-916853", "REACTOME:R-RNO-916853", "REACTOME:R-SCE-916853", "REACTOME:R-SPO-916853" ]

12

[ "2w8n", "2w8o", "2w8p", "2w8q", "2w8r", "3ek1", "3jz4", "4v6h", "8c54", "8of1", "8of3", "8ofm", "8s33" ]

13

[ "PUB00000167", "PUB00002153", "PUB00013487", "PUB00013488", "PUB00013489" ]

[ "8297211", "1917845", "10564790", "7814412", "3888627" ]

[ "Molecular organization of the Escherichia coli gab cluster: nucleotide sequence of the structural genes gabD and gabP and expression of the GABA permease gene.", "Molecular cloning and DNA sequencing of the Escherichia coli K-12 ald gene encoding aldehyde dehydrogenase.", "Biochemical and molecular characteriz...

[ 1993, 1991, 1999, 1995, 1985 ]

5

[]

0

null

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

[ 12694, 3602, 54 ]

3

[ "Arabidopsis thaliana", "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", "Saccharomyces cerevisiae...

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

12

true

Family

Succinate semialdehyde dehydrogenase

Succ_semiAld_DH

3

IPR010103

10,103

Clustered lipoprotein, Treponema denticola

Clustered_lipoprot_TREDE

Family

44

false

This entry represents a family of six predicted lipoproteins from a region of about 20 tandemly arranged genes in the Treponema denticola genome. Two other neighbouring genes share the lipoprotein signal peptide region but do not show more extensive homology. The function of this locus is unknown.

[]

0

[ "PFAM", "NCBIFAM" ]

[ "PF09710", "TIGR01781" ]

[ "Trep_dent_lipo", "Trep_dent_lipo" ]

[ 44, 17 ]

2

[]

0

[]

0

[]

0

[]

0

null

[ "Pseudomonadati" ]

[ 44 ]

1

[]

0

true

Family

Clustered lipoprotein, Treponema denticola

Clustered_lipoprot_TREDE

3

IPR010104

10,104

Bacterial TonB-dependent receptor

TonB_rcpt_bac

Family

16,136

false

This entry represents a family of TonB-dependent outer-membrane receptors which are found mainly in Xanthomonas and Caulobacter. These appear to represent the expansion of a paralogous family in that the 22 Xanthomonas axonopodis (21 in Xanthomonas campestris) and 18 Caulobacter crescentus (Caulobacter vibrioides) sequ...

[]

0

[ "NCBIFAM" ]

[ "TIGR01782" ]

[ "TonB-Xanth-Caul" ]

[ 16136 ]

1

[]

0

[]

0

[]

0

[]

0

null

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

[ 16052, 23, 61 ]

3

[]

0

true

Family

Bacterial TonB-dependent receptor

TonB_rcpt_bac

4

IPR010105

10,105

TonB-dependent siderophore receptor

TonB_sidphr_rcpt

Family

57,053

false

This entry represents a number of TonB-like receptors. They fold into an antiparallel β-barrel with enclosed in their interior an α/β plug domain. The outer membrane is an essential component of Gram-negative bacteria, providing them with increased resistance to antibiotics, digestive enzymes, detergents and immune sur...

[ "GO:0015343", "GO:0038023", "GO:0015891", "GO:0009279" ]

[ "siderophore-iron transmembrane transporter activity", "signaling receptor activity", "siderophore transport", "cell outer membrane" ]

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

4

[ "NCBIFAM" ]

[ "TIGR01783" ]

[ "TonB-siderophor" ]

[ 57053 ]

1

[ "REACTOME", "REACTOME" ]

[ "R-HSA-9638334", "R-HSA-9638482" ]

[ "REACTOME:R-HSA-9638334", "REACTOME:R-HSA-9638482" ]

2

[ "1by3", "1by5", "1fcp", "1fep", "1fi1", "1kmo", "1kmp", "1pnz", "1po0", "1po3", "1qff", "1qfg", "1qjq", "1qkc", "1xkh", "1xkw", "2fcp", "2grx", "2iah", "2o5p", "2w16", "2w6t", "2w6u", "2w75", "2w76", "2w77", "2w78", "3efm", "3qlb", "4aip", "4aiq", "4b7o"...

77

[ "PUB00006673", "PUB00014980", "PUB00014981", "PUB00014982", "PUB00014984", "PUB00014986" ]

[ "9886293", "14499604", "9865695", "9856937", "12652322", "11872840" ]

[ "Crystal structure of the outer membrane active transporter FepA from Escherichia coli.", "The Escherichia coli outer membrane cobalamin transporter BtuB: structural analysis of calcium and substrate binding, and identification of orthologous transporters by sequence/structure conservation.", "Transmembrane sig...

[ 1999, 2003, 1998, 1998, 2003, 2002 ]

6

[ "IPR039426" ]

[ "IPR049654", "IPR058134" ]

1

2

0

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

[ 56647, 42, 364 ]

3

[ "Escherichia coli (strain K12)" ]

[ 6 ]

1

true

Family

TonB-dependent siderophore receptor

TonB_sidphr_rcpt

6

IPR010106

10,106

Recombination-promoting nuclease RpnA

RpnA

Family

17,939

false

This entry includes recombination-promoting nuclease RpnA (also known as YhgA) from Escherichia coli , which is a low activity DNA endonuclease active on single- and double-stranded DNA, but not RNA, with little sequence specificity [ ]. This aids horizontal gene transfer because the cleavage products are capable of pr...

[]

0

[ "NCBIFAM" ]

[ "TIGR01784" ]

[ "T_den_put_tspse" ]

[ 17939 ]

1

[ "EC" ]

[ "3.1.21.-" ]

[ "EC:3.1.21.-" ]

1

[]

0

[ "PUB00085189" ]

[ "28096446" ]

[ "Rpn (YhgA-Like) Proteins of Escherichia coli K-12 and Their Contribution to RecA-Independent Horizontal Transfer." ]

[ 2017 ]

1

[]

0

null

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

[ 17616, 214, 48, 61 ]

4

[ "Escherichia coli (strain K12)" ]

[ 6 ]

1

true

Family

Recombination-promoting nuclease RpnA

RpnA

9

IPR010107

10,107

Glutamate decarboxylase

Glutamate_decarboxylase

Family

10,900

false

This entry represents glutamate decarboxylase (Gad; ) it is a pyridoxal 5'-phosphate (PLP)-dependent enzyme, which catalyses the irreversible α-decarboxylation of L-glutamate to gamma-aminobutyrate (GABA). This enzyme is widely distributed amongst eukaryotes and prokaryotes, but its function varies in different organis...

[ "GO:0004351", "GO:0030170", "GO:0006536" ]

[ "glutamate decarboxylase activity", "pyridoxal phosphate binding", "glutamate metabolic process" ]

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

3

[ "PANTHER", "NCBIFAM" ]

[ "PTHR43321", "TIGR01788" ]

[ "", "Glu-decarb-GAD" ]

[ 10897, 9572 ]

2

[ "EC", "METACYC" ]

[ "4.1.1.15", "PWY-8346" ]

[ "EC:4.1.1.15", "METACYC:PWY-8346" ]

2

[ "1pmm", "1pmo", "1xey", "2dgk", "2dgl", "2dgm", "3fz6", "3fz7", "3fz8", "3hbx", "5gp4", "7jzh", "7x4l", "7x4r", "7x4y", "7x51", "7x52", "8zuw" ]

18

[ "PUB00029912", "PUB00034432", "PUB00034433", "PUB00034434", "PUB00034435" ]

[ "12912902", "9871412", "1522060", "11309128", "11031268" ]

[ "Crystal structure and functional analysis of Escherichia coli glutamate decarboxylase.", "Two isoforms of glutamate decarboxylase: why?", "Escherichia coli has two homologous glutamate decarboxylase genes that map to distinct loci.", "A glutamate decarboxylase system protects Listeria monocytogenes in gastri...

[ 2003, 1998, 1992, 2001, 2001 ]

5

[]

0

null

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

[ 4978, 5830, 46, 46 ]

4

[ "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)", "Zea mays" ]

[ 28, 2, 2, 21, 1, 26 ]

6

true

Family

Glutamate decarboxylase

Glutamate_decarboxylase

6

IPR010108

10,108

Lycopene cyclase, beta/epsilon

Lycopene_cyclase_b/e

Family

4,685

false

This family includes lycopene beta-and epsilon-cyclases, which are involved in the biosynthesis of carotenoids in bacteria and plants, and the related capsanthin capsorubin synthase (Ccs) from plants, which converts antheraxanthin or violaxanthin into capsanthin or capsorubin by a mechanism similar to lycopene cyclizat...

[ "GO:0016705", "GO:0016117" ]

[ "oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen", "carotenoid biosynthetic process" ]

[ "molecular_function", "biological_process" ]

2

[ "PANTHER", "NCBIFAM" ]

[ "PTHR39757", "TIGR01790" ]

[ "", "carotene-cycl" ]

[ 3714, 3405 ]

2

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

[ "5.5.1.19", "GenProp0758", "GenProp1451", "GenProp1763", "PWY-5943", "PWY-5946", "PWY-5947", "PWY-6279", "PWY-7591", "PWY-7938", "PWY-7939", "PWY-7947" ]

[ "EC:5.5.1.19", "GP:GenProp0758", "GP:GenProp1451", "GP:GenProp1763", "METACYC:PWY-5943", "METACYC:PWY-5946", "METACYC:PWY-5947", "METACYC:PWY-6279", "METACYC:PWY-7591", "METACYC:PWY-7938", "METACYC:PWY-7939", "METACYC:PWY-7947" ]

12

[]

0

[ "PUB00011586", "PUB00076703", "PUB00106873", "PUB00106874" ]

[ "8837512", "11094161", "12782726", "25943989" ]

[ "Functional analysis of the beta and epsilon lycopene cyclase enzymes of Arabidopsis reveals a mechanism for control of cyclic carotenoid formation.", "Identification of a novel gene coding for neoxanthin synthase from Solanum tuberosum.", "Functional analysis of beta- and epsilon-ring carotenoid hydroxylases i...

[ 1996, 2000, 2003, 2015 ]

4

[]

[ "IPR008461", "IPR054896" ]

0

2

0

[ "Bacteria", "Eukaryota", "Mimiviridae sp. ChoanoV1", "ecological metagenomes" ]

[ 2193, 2481, 1, 10 ]

4

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

[ 9, 7, 5 ]

3

true

Family

Lycopene cyclase, beta/epsilon

Lycopene_cyclase_b/e

3

IPR010110

10,110

Shikimate dehydrogenase, AroM-type

Shikimate_DH_AroM-type

Domain

3,164

false

This entry represents a clade of shikimate-5-dehydrogenases found in Corynebacterium, Mycobacteria and fungi. The fungal sequences are pentafunctional proteins known as AroM which contain the central five seven steps in the chorismate biosynthesis pathway. The Corynebacterium and Mycobacterial sequences represent the s...

[ "GO:0004764", "GO:0005737" ]

[ "shikimate 3-dehydrogenase (NADP+) activity", "cytoplasm" ]

[ "molecular_function", "cellular_component" ]

2

[ "NCBIFAM" ]

[ "TIGR01809" ]

[ "Shik-DH-AROM" ]

[ 3164 ]

1

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

[ "1.1.1.25", "2.5.1.19", "2.7.1.71", "4.2.1.10", "4.2.3.4", "GenProp0001", "PWY-6163", "PWY-6164", "PWY-6416", "PWY-6707" ]

[ "EC:1.1.1.25", "EC:2.5.1.19", "EC:2.7.1.71", "EC:4.2.1.10", "EC:4.2.3.4", "GP:GenProp0001", "METACYC:PWY-6163", "METACYC:PWY-6164", "METACYC:PWY-6416", "METACYC:PWY-6707" ]

10

[ "4p4g", "4p4l", "4p4n", "4xij", "5swv", "6hqv", "7tbv", "7u5s", "7u5t", "7u5u" ]

10

[]

0

[]

0

null

[ "Actinomycetes", "Eukaryota", "freshwater metagenome" ]

[ 1227, 1936, 1 ]

3

[ "Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987)", "Saccharomyces cerevisiae (strain ATCC 204508 / S288c)", "Schizosaccharomyces pombe (strain 972 / ATCC 24843)" ]

[ 1, 1, 1 ]

3

true

Domain

Shikimate dehydrogenase, AroM-type

Shikimate_DH_AroM-type

3

IPR010111

10,111

Kynureninase

Family

14,501

false

This entry describes kynureninase, it is a pyridoxal-5'-phosphate (PLP)-dependent enzyme that catalyzes the hydrolytic cleavage of L-kynurenine to anthranilic acid and L-alanine. Kynurinine is a Trp breakdown product and a precursor for NAD. This reaction is a key step in the catabolism of L-tryptophan by Pseudomonas f...

[ "GO:0030170", "GO:0030429", "GO:0006569", "GO:0009435", "GO:0005737" ]

[ "pyridoxal phosphate binding", "kynureninase activity", "L-tryptophan catabolic process", "NAD+ biosynthetic process", "cytoplasm" ]

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

5

[ "HAMAP", "PFAM", "PIRSF", "PANTHER", "NCBIFAM" ]

[ "MF_01970", "PF22580", "PIRSF038800", "PTHR14084", "TIGR01814" ]

[ "Kynureninase", "KYNU_C", "KYNU", "", "kynureninase" ]

[ 11621, 13294, 12908, 14286, 12109 ]

5

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

[ "3.7.1.3", "GenProp0659", "GenProp1503", "PWY-5651", "PWY-6309", "PWY-7765", "R-CEL-71240", "R-DDI-71240", "R-HSA-71240", "R-MMU-71240", "R-RNO-71240", "R-SCE-71240" ]

[ "EC:3.7.1.3", "GP:GenProp0659", "GP:GenProp1503", "METACYC:PWY-5651", "METACYC:PWY-6309", "METACYC:PWY-7765", "REACTOME:R-CEL-71240", "REACTOME:R-DDI-71240", "REACTOME:R-HSA-71240", "REACTOME:R-MMU-71240", "REACTOME:R-RNO-71240", "REACTOME:R-SCE-71240" ]

12

[ "1qz9", "2hzp", "3e9k", "7s3v" ]

4

[ "PUB00030461", "PUB00035511", "PUB00051631", "PUB00064804", "PUB00154029", "PUB00154030" ]

[ "14756555", "17300176", "19143568", "12062417", "25517350", "27139833" ]

[ "Three-dimensional structure of kynureninase from Pseudomonas fluorescens.", "Crystal structure of Homo sapiens kynureninase.", "Crystal structure of the Homo sapiens kynureninase-3-hydroxyhippuric acid inhibitor complex: insights into the molecular basis of kynureninase substrate specificity.", "Aerobic and ...

[ 2004, 2007, 2009, 2002, 2014, 2016 ]

6

[]

0

null

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

[ 157, 9619, 4460, 265 ]

4

[ "Caenorhabditis elegans", "Danio rerio", "Homo sapiens", "Mus musculus", "Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987)", "Rattus norvegicus", "Saccharomyces cerevisiae (strain ATCC 204508 / S288c)" ]

[ 1, 1, 10, 6, 2, 6, 1 ]

7

true

Family

Kynureninase

3

IPR010112

10,112

Anthranilate synthase, bacteria

TrpE-G_bact

Family

1,563

false

This entry represents a small group of anthranilate synthases mainly from alpha proteobacteria and Nostoc (a cyanobacterium). Anthranilate synthase catalyses the first step in the pathway for the biosynthesis of tryprophan from chorismate. The genes involved in this enzymatic reaction are trpE and trpG, which encode co...

[ "GO:0004049", "GO:0000162" ]

[ "anthranilate synthase activity", "L-tryptophan biosynthetic process" ]

[ "molecular_function", "biological_process" ]

2

[ "PIRSF", "NCBIFAM" ]

[ "PIRSF036934", "TIGR01815" ]

[ "TrpE-G", "TrpE-clade3" ]

[ 1464, 1563 ]

2

[ "GP" ]

[ "GenProp0037" ]

[ "GP:GenProp0037" ]

1

[]

0

[ "PUB00067852" ]

[ "8939798" ]

[ "Isolation and characterization of the Azospirillum brasilense trpE(G) gene, encoding anthranilate synthase." ]

[ 1997 ]

1

[ "IPR019999" ]

[]

1

0

1

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

[ 1493, 62, 8 ]

3

[]

0

true

Family

Anthranilate synthase, bacteria

TrpE-G_bact

6

IPR010114

10,114

DNA-binding transcriptional regulator NtrC

Transcript_reg_NtrC

Family

7,336

false

Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions [ ]. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk [ ]. These pathways have been adapt...

[ "GO:0000156", "GO:0003677", "GO:0005524", "GO:0000160", "GO:0006808" ]

[ "phosphorelay response regulator activity", "DNA binding", "ATP binding", "phosphorelay signal transduction system", "regulation of nitrogen utilization" ]

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

5

[ "NCBIFAM" ]

[ "TIGR01818" ]

[ "ntrC" ]

[ 7336 ]

1

[]

0

[]

0

[ "PUB00001740", "PUB00004626", "PUB00010651", "PUB00011096", "PUB00011159", "PUB00029212", "PUB00034429", "PUB00034430", "PUB00034431", "PUB00042804", "PUB00042805", "PUB00042806", "PUB00042807" ]

[ "2517036", "3020561", "12372152", "10966457", "2677638", "10512705", "3011408", "8331061", "3304660", "16176121", "18076326", "11934609", "11489844" ]

[ "The -24/-12 promoter comes of age.", "Two-component regulatory systems responsive to environmental stimuli share strongly conserved domains with the nitrogen assimilation regulatory genes ntrB and ntrC.", "Histidine protein kinases: key signal transducers outside the animal kingdom.", "Two-component signal t...

[ 1989, 1986, 2002, 2000, 1989, 1999, 1986, 1993, 1987, 2005, 2007, 2002, 2001 ]

13

[]

0

null

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

[ 7257, 11, 68 ]

3

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

DNA-binding transcriptional regulator NtrC

Transcript_reg_NtrC

2

IPR010115

10,115

Phosphoenolpyruvate transferase/2-phospho-L-lactate transferase

FbiA/CofD

Family

4,742

false

This entry includes 2-phospho-L-lactate transferase (CofD), which catalyses the transfer of the 2-phospholactate moiety from (2S)-lactyl-2-diphospho-5'-guanosine to 7,8-didemethyl-8-hydroxy-5-deazariboflavin (FO), and phosphoenolpyruvate transferase (FbiA) which catalyses the transfer of the phosphoenolpyruvate moiety ...

[ "GO:0000287", "GO:0043743" ]

[ "magnesium ion binding", "LPPG:FO 2-phospho-L-lactate transferase activity" ]

[ "molecular_function", "molecular_function" ]

2

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

[ "MF_01257", "PTHR43007", "TIGR01819", "cd07186" ]

[ "CofD", "", "F420_cofD", "CofD_like" ]

[ 4548, 4741, 4492, 3440 ]

4

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

[ "2.7.8.28", "GenProp0791", "PWY-5198", "PWY-8112", "PWY-8113" ]

[ "EC:2.7.8.28", "GP:GenProp0791", "METACYC:PWY-5198", "METACYC:PWY-8112", "METACYC:PWY-8113" ]

5

[ "3c3d", "3c3e", "3cgw", "6uvx", "6uw1", "6uw3", "6uw5", "6uw7" ]

8

[ "PUB00013496", "PUB00050875", "PUB00093753" ]

[ "11888293", "18252724", "30952857" ]

[ "Characterization of the 2-phospho-L-lactate transferase enzyme involved in coenzyme F(420) biosynthesis in Methanococcus jannaschii.", "Molecular insights into the biosynthesis of the F420 coenzyme.", "A revised biosynthetic pathway for the cofactor F420 in prokaryotes." ]

[ 2002, 2008, 2019 ]

3

[ "IPR002882" ]

[]

1

0

1

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

[ 729, 3823, 9, 181 ]

4

[]

0

true

Family

Phosphoenolpyruvate transferase/2-phospho-L-lactate transferase

FbiA/CofD

3

IPR010117

10,117

Para-aminobenzoate synthase

PabB_fungal

Family

1,260

false

This entry represents the fungal clade of para-aminobenzoate synthase, which acts on chorismate to form para-aminobenzoic acid (PABA), a precursor of folate.

[]

0

[ "NCBIFAM" ]

[ "TIGR01823" ]

[ "PabB-fungal" ]

[ 1260 ]

1

[ "GP" ]

[ "GenProp0759" ]

[ "GP:GenProp0759" ]

1

[]

0

[]

0

[]

0

null

[ "Bacteria", "Eukaryota" ]

[ 24, 1236 ]

2

[ "Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987)", "Saccharomyces cerevisiae (strain ATCC 204508 / S288c)", "Schizosaccharomyces pombe (strain 972 / ATCC 24843)" ]

[ 2, 1, 1 ]

3

true

Family

Para-aminobenzoate synthase

PabB_fungal

4

IPR010118

10,118

Para-aminobenzoate synthase/anthranilate synthase, component I

Para-NH2Bz/anthranilate_synth

Family

896

false

This clade of sequences is more closely related to TrpE (anthranilate synthase, , , ) than to the better characterised group of PabB enzymes ( , ). This clade includes one characterised enzyme from Lactococcus [ ] and the conserved function across the clade is supported by these pieces of evidence: 1) all genomes with ...

[]

0

[ "NCBIFAM" ]

[ "TIGR01824" ]

[ "PabB-clade2" ]

[ 896 ]

1

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

[ "4.1.3.27", "GenProp0759", "PWY-5958", "PWY-6661" ]

[ "EC:4.1.3.27", "GP:GenProp0759", "METACYC:PWY-5958", "METACYC:PWY-6661" ]

4

[ "4grh" ]

1

[ "PUB00013800" ]

[ "8409921" ]

[ "Cloning, nucleotide sequence and expression in Streptomyces lividans and Escherichia coli of pabB from Lactococcus lactis subsp. lactis NCDO 496." ]

[ 1993 ]

1

[ "IPR019999" ]

[]

1

0

1

[ "Bacteria", "Halobacteriales", "Knufia peltigerae", "hydrothermal vent metagenome" ]

[ 698, 196, 1, 1 ]

4

[]

0

true

Family

Para-aminobenzoate synthase/anthranilate synthase, component I

Para-NH2Bz/anthranilate_synth

1

IPR010119

10,119

Gluconeogenesis factor

Gluconeogen_factor

Family

12,185

false

In Bacillus subtilis the gluconeogenesis factor is required for morphogenesis under gluconeogenic growth conditions. It is required for the correct localisation of penicillin-binding protein PBP1, and hence for displaying a normal rod shape [ , ].

[]

0

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

[ "MF_00973", "PTHR30135", "TIGR01826" ]

[ "Gluconeogen_factor", "", "CofD_related" ]

[ 11248, 12180, 11541 ]

3

[]

0

[ "2hzb", "2o2z", "2p0y", "2ppv", "2q7x" ]

5

[ "PUB00069575", "PUB00069576" ]

[ "16272399", "21320184" ]

[ "YvcK of Bacillus subtilis is required for a normal cell shape and for growth on Krebs cycle intermediates and substrates of the pentose phosphate pathway.", "The YvcK protein is required for morphogenesis via localization of PBP1 under gluconeogenic growth conditions in Bacillus subtilis." ]

[ 2005, 2011 ]

2

[ "IPR002882" ]

[]

1

0

1

[ "Bacteria", "Eukaryota", "Nanobdellati", "Streptococcus phage MM1", "metagenomes" ]

[ 11881, 91, 6, 1, 206 ]

5

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Gluconeogenesis factor

Gluconeogen_factor

5

IPR010120

10,120

Probable glutamyl-tRNA(Gln) amidotransferase subunit C, archaea

Glu-ADT_subunit_C_archaea

Family

88

false

This entry represents a family related to GatC, the third subunit of an enzyme for completing the charging of tRNA(Gln) by amidating the Glu-tRNA(Gln). The few known archaea that contain a member of this family appear to produce Asn-tRNA(Asn) by an analogous amidotransferase reaction. This protein is proposed to substi...

[]

0

[ "NCBIFAM" ]

[ "TIGR01827" ]

[ "gatC_rel" ]

[ 88 ]

1

[]

0

[]

0

[]

0

[]

0

null

[ "Methanobacteriati", "ecological metagenomes" ]

[ 86, 2 ]

2

[]

0

true

Family

Probable glutamyl-tRNA(Gln) amidotransferase subunit C, archaea

Glu-ADT_subunit_C_archaea

8

IPR010121

10,121

Pyruvate, phosphate dikinase

Pyruvate_phosphate_dikinase

Family

14,768

false

Pyruvate phosphate dikinase (PPDK, or pyruvate orthophosphate dikinase) is found in plants, bacteria and archaea. The amino acid sequence identity between bacterial and plant enzymes is high, and they are similar in sequence to other PEP-utilizing enzymes. PPDK catalyses the reversible conversion of ATP and pyruvate to...

[ "GO:0050242", "GO:0006090" ]

[ "pyruvate, phosphate dikinase activity", "pyruvate metabolic process" ]

[ "molecular_function", "biological_process" ]

2

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

[ "PIRSF000853", "PTHR22931", "TIGR01828" ]

[ "PPDK", "", "pyru_phos_dikin" ]

[ 11603, 14768, 11103 ]

3

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

[ "2.7.9.1", "PWY-241", "PWY-6549", "PWY-7115", "PWY-7117" ]

[ "EC:2.7.9.1", "METACYC:PWY-241", "METACYC:PWY-6549", "METACYC:PWY-7115", "METACYC:PWY-7117" ]

5

[ "1dik", "1ggo", "1jde", "1kbl", "1kc7", "1vbg", "1vbh", "2dik", "2fm4", "2r82", "2x0s", "5jvj", "5jvl", "5jvn", "5lu4", "9pzl" ]

16

[ "PUB00014902", "PUB00014903", "PUB00014904" ]

[ "11695893", "14684927", "11950985" ]

[ "Investigation of the role of the domain linkers in separate site catalysis by Clostridium symbiosum pyruvate phosphate dikinase.", "Purification, crystallization and preliminary X-ray diffraction studies on pyruvate phosphate dikinase from maize.", "Pyruvate,orthophosphate dikinase in leaves and chloroplasts o...

[ 2001, 2004, 2002 ]

3

[]

0

null

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

[ 284, 11950, 2, 1911, 621 ]

5

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

[ 6, 8, 66 ]

3

true

Family

Pyruvate, phosphate dikinase

Pyruvate_phosphate_dikinase

7

IPR010123

10,123

Poly(R)-hydroxyalkanoic acid synthase, class III, PhaE subunit

PHA_synth_III_E

Family

1,152

false

Poly(R)-hydroxyalkanoic acids (PHAs) function as carbon and energy storage polymers in many bacteria. This entry represents the PhaE subunit of the heterodimeric class (class III) of PHA synthases. The most common PHA is polyhydroxybutyrate but about 150 different constituent hydroxyalkanoic acids (HAs) have been ident...

[]

0

[ "PFAM", "NCBIFAM" ]

[ "PF09712", "TIGR01834" ]

[ "PHA_synth_III_E", "PHA_synth_III_E" ]

[ 1152, 449 ]

2

[ "GP" ]

[ "GenProp0055" ]

[ "GP:GenProp0055" ]

1

[]

0

[]

0

[]

0

null

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

[ 228, 906, 2, 16 ]

4

[]

0

true

Family

Poly(R)-hydroxyalkanoic acid synthase, class III, PhaE subunit

PHA_synth_III_E

7

IPR010125

10,125

Poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit

PHA_synth_III_C

Family

1,397

false

This entry represents the PhaC subunit of a heterodimeric form of polyhydroxyalkanoic acid (PHA) synthase. Excepting the PhaC of Bacillus megaterium (which needs PhaR), all members require PhaE ( ) for activity and are designated class III. This enzyme builds ester polymers for carbon and energy storage that accumulate...

[ "GO:0016746", "GO:0042619" ]

[ "acyltransferase activity", "poly-hydroxybutyrate biosynthetic process" ]

[ "molecular_function", "biological_process" ]

2

[ "NCBIFAM" ]

[ "TIGR01836" ]

[ "PHA_synth_III_C" ]

[ 1397 ]

1

[ "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", "...

[ "2.3.1.-", "GenProp0055", "PWY-3602", "PWY-361", "PWY-4801", "PWY-4922", "PWY-5048", "PWY-5139", "PWY-5268", "PWY-5284", "PWY-5292", "PWY-5307", "PWY-5313", "PWY-5317", "PWY-5318", "PWY-5353", "PWY-5400", "PWY-5473", "PWY-5475", "PWY-5477", "PWY-5660", "PWY-5679", "PWY-57...

[ "EC:2.3.1.-", "GP:GenProp0055", "METACYC:PWY-3602", "METACYC:PWY-361", "METACYC:PWY-4801", "METACYC:PWY-4922", "METACYC:PWY-5048", "METACYC:PWY-5139", "METACYC:PWY-5268", "METACYC:PWY-5284", "METACYC:PWY-5292", "METACYC:PWY-5307", "METACYC:PWY-5313", "METACYC:PWY-5317", "METACYC:PWY-5318...

220

[]

0

[]

0

[]

0

null

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

[ 288, 1093, 5, 11 ]

4

[]

0

true

Family

Poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit

PHA_synth_III_C

8

IPR010126

10,126

Esterase, PHB depolymerase

Esterase_phb

Family

11,233

false

This entry describes a group of lipases, including bacterial depolymerases for poly(3-hydroxybutyrate) (PHB) [ ] and related polyhydroxyalkanoates (PHA), as well as acetyl xylan esterases [ ], and feruloyl esterases from fungi [ ]. Putative esterase NocK from Nocardia uniformis also belongs to this protein family. This...

[ "GO:0016787", "GO:0005576" ]

[ "hydrolase activity", "extracellular region" ]

[ "molecular_function", "cellular_component" ]

2

[ "PFAM", "NCBIFAM" ]

[ "PF10503", "TIGR01840" ]

[ "Esterase_PHB", "esterase_phb" ]

[ 11194, 8398 ]

2

[ "EC", "GP" ]

[ "3.1.1.72", "GenProp0055" ]

[ "EC:3.1.1.72", "GP:GenProp0055" ]

2

[ "5x6s", "8daj", "8iy8", "8iyb", "8iyc", "9byu" ]

6

[ "PUB00075157", "PUB00077553", "PUB00079187", "PUB00101365" ]

[ "17008082", "15006424", "2644188", "15629944" ]

[ "Penicillium purpurogenum produces a family 1 acetyl xylan esterase containing a carbohydrate-binding module: characterization of the protein and its gene.", "The feruloyl esterase system of Talaromyces stipitatus: production of three discrete feruloyl esterases, including a novel enzyme, TsFaeC, with a broad sub...

[ 2006, 2004, 1989, 2005 ]

4

[]

0

null

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

[ 33, 8530, 2610, 60 ]

4

[ "Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987)" ]

[ 4 ]

1

true

Family

Esterase, PHB depolymerase

Esterase_phb

4

IPR010127

10,127

Phasin, subfamily 1

Phasin_subfam-1

Family

5,016

false

Phasins (or granule-associate proteins) are surface proteins found covering Polyhydroxyalkanoate (PHA) storage granules in bacteria. Polyhydroxyalkanoates are linear polyesters produced by bacterial fermentation of sugar or lipids for the purpose of storing carbon and energy, and are accumulated as intracellular granul...

[]

0

[ "NCBIFAM" ]

[ "TIGR01841" ]

[ "phasin" ]

[ 5016 ]

1

[ "GP" ]

[ "GenProp0055" ]

[ "GP:GenProp0055" ]

1

[]

0

[ "PUB00045301", "PUB00045302", "PUB00045303" ]

[ "17965215", "18223073", "15256572" ]

[ "Effects of granule-associated protein PhaP on glycerol-dependent growth and polymer production in poly(3-hydroxybutyrate)-producing Escherichia coli.", "Binding of the major phasin, PhaP1, from Ralstonia eutropha H16 to poly(3-hydroxybutyrate) granules.", "The complex structure of polyhydroxybutyrate (PHB) gra...

[ 2007, 2008, 2004 ]

3

[]

0

null

[ "Bacteria", "Eukaryota", "Riboviria sp.", "metagenomes" ]

[ 4975, 12, 1, 28 ]

4

[]

0

true

Family

Phasin, subfamily 1

Phasin_subfam-1

6

IPR010128

10,128

ATPase, type I secretion system, PrtD-like

ATPase_T1SS_PrtD-like

Family

6,473

false

Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. PrtD, an ABC transporter, is one of three proteins of the type I secretion apparatus, which assemble with PrtE and PrtF to form the complex required...

[ "GO:0005524", "GO:0030253", "GO:0016020", "GO:0030256" ]

[ "ATP binding", "protein secretion by the type I secretion system", "membrane", "type I protein secretion system complex" ]

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

4

[ "NCBIFAM" ]

[ "TIGR01842" ]

[ "type_I_sec_PrtD" ]

[ 6473 ]

1

[ "GP" ]

[ "GenProp0059" ]

[ "GP:GenProp0059" ]

1

[ "5l22" ]

1

[ "PUB00095246" ]

[ "28216041" ]

[ "Structure of a Type-1 Secretion System ABC Transporter." ]

[ 2017 ]

1

[ "IPR039421" ]

[]

1

0

1

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

[ 6425, 16, 32 ]

3

[]

0

true

Family

ATPase, type I secretion system, PrtD-like

ATPase_T1SS_PrtD-like

3

IPR010129

10,129

Type I secretion membrane fusion protein, HlyD family

T1SS_HlyD

Family

15,745

false

Type I secretion is an ABC transporter that exports proteins, without cleavage of any signal sequence, from the cytosol to extracellular medium across both inner and outer membranes. The secretion signal is found in the C terminus of the transported protein. This entry represents the adaptor protein between the ATP-bin...

[ "GO:0015031", "GO:0016020" ]

[ "protein transport", "membrane" ]

[ "biological_process", "cellular_component" ]

2

[ "NCBIFAM" ]

[ "TIGR01843" ]

[ "type_I_hlyD" ]

[ 15745 ]

1

[ "GP", "REACTOME" ]

[ "GenProp0059", "R-HSA-9760173" ]

[ "GP:GenProp0059", "REACTOME:R-HSA-9760173" ]

2

[ "5c21", "5c22", "5nen", "8dck" ]

4

[ "PUB00007661", "PUB00078037" ]

[ "1495479", "26833388" ]

[ "A topological model for the haemolysin translocator protein HlyD.", "Crystal Structure of a Soluble Fragment of the Membrane Fusion Protein HlyD in a Type I Secretion System of Gram-Negative Bacteria." ]

[ 1992, 2016 ]

2

[]

0

null

[ "Bacteria", "Candidatus Nitrosopumilus salarius BD31", "Eukaryota", "unclassified sequences" ]

[ 15628, 1, 30, 86 ]

4

[ "Mus musculus" ]

[ 1 ]

1

true

Family

Type I secretion membrane fusion protein, HlyD family

T1SS_HlyD

2

IPR010130

10,130

Type I secretion outer membrane protein, TolC

T1SS_OMP_TolC

Family

16,091

false

Members of group of are outer membrane proteins from the TolC family within the RND (Resistance-Nodulation-cell Division) efflux systems. These proteins, unlike the NodT family, appear not to be lipoproteins. All are believed to participate in type I protein secretion, an ABC transporter system for protein secretion wi...

[ "GO:0015562", "GO:0055085", "GO:0019867" ]

[ "efflux transmembrane transporter activity", "transmembrane transport", "outer membrane" ]

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

3

[ "NCBIFAM" ]

[ "TIGR01844" ]

[ "type_I_sec_TolC" ]

[ 16091 ]

1

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

[ "GenProp0059", "GenProp1151", "R-HSA-9638334", "R-HSA-9760173", "R-HSA-9913143" ]

[ "GP:GenProp0059", "GP:GenProp1151", "REACTOME:R-HSA-9638334", "REACTOME:R-HSA-9760173", "REACTOME:R-HSA-9913143" ]

5

[ "1ek9", "1tqq", "2vdd", "2vde", "2wmz", "2xmn", "5bun", "5ng5", "5nik", "5nil", "5o66", "5v5s", "6wxh", "6wxi", "7ng8", "7ng9", "8zal", "8zar", "9v52", "9v53", "9v55" ]

21

[ "PUB00013499", "PUB00071260" ]

[ "11589692", "15189150" ]

[ "The role of the TolC family in protein transport and multidrug efflux. From stereochemical certainty to mechanistic hypothesis.", "Structure and function of TolC: the bacterial exit duct for proteins and drugs." ]

[ 2001, 2004 ]

2

[ "IPR051906" ]

[ "IPR058622" ]

1

0

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

[ 15940, 14, 137 ]

3

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Type I secretion outer membrane protein, TolC

T1SS_OMP_TolC

6

IPR010131

10,131

Multidrug resistance outer membrane protein MdtP/Nodulation protein T-like

MdtP/NodT-like

Family

71,565

false

This protein family includes Multidrug resistance outer membrane protein MdtP from Escherichia coli, Nodulation protein T from Rhizobium leguminosarum and similar bacterial proteins. MdtP is thought to be involved in resistance to puromycin, acriflavine and tetraphenylarsonium chloride [ ]. NodT forms part of the RND (...

[ "GO:0022857", "GO:0055085", "GO:0016020" ]

[ "transmembrane transporter activity", "transmembrane transport", "membrane" ]

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

3

[ "PANTHER", "NCBIFAM" ]

[ "PTHR30203", "TIGR01845" ]

[ "", "outer_NodT" ]

[ 71374, 50397 ]

2

[ "GP" ]

[ "GenProp1168" ]

[ "GP:GenProp1168" ]

1

[ "1wp1", "1yc9", "3d5k", "3pik", "4k34", "4k7k", "4k7r", "4mt0", "4mt4", "4y1k", "5azo", "5azp", "5azs", "5iuy", "5nsw", "6iok", "6iol", "6ta5", "6ta6", "6u94", "6zre", "7akz", "9j3d", "9j3e", "9rmm" ]

25

[ "PUB00071904" ]

[ "11257026" ]

[ "Antibiotic susceptibility profiles of Escherichia coli strains lacking multidrug efflux pump genes." ]

[ 2001 ]

1

[ "IPR003423" ]

[]

1

0

1

[ "Bacteria", "Eukaryota", "Plasmid pMCBF1", "unclassified Caudoviricetes", "unclassified sequences" ]

[ 70736, 123, 1, 2, 703 ]

5

[ "Escherichia coli (strain K12)", "Oryza sativa subsp. japonica" ]

[ 3, 1 ]

2

true

Family

Multidrug resistance outer membrane protein MdtP/Nodulation protein T-like

MdtP/NodT-like

3

IPR010132

10,132

ATPase, type I secretion system, HlyB

ATPase_T1SS_HlyB

Family

2,670

false

Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This entry contains one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N terminus, but rather carry s...

[ "GO:0005524", "GO:0030253", "GO:0016020", "GO:0030256" ]

[ "ATP binding", "protein secretion by the type I secretion system", "membrane", "type I protein secretion system complex" ]

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

4

[ "NCBIFAM" ]

[ "TIGR01846" ]

[ "type_I_sec_HlyB" ]

[ 2670 ]

1

[ "GP", "REACTOME" ]

[ "GenProp0059", "R-HSA-9760173" ]

[ "GP:GenProp0059", "REACTOME:R-HSA-9760173" ]

2

[ "7sgr", "8dck" ]

2

[]

0

[ "IPR039421" ]

[]

1

0

1

[ "Bacteria", "Oppiella nova", "unclassified sequences" ]

[ 2661, 1, 8 ]

3

[]

0

true

Family

ATPase, type I secretion system, HlyB

ATPase_T1SS_HlyB

8

IPR010133

10,133

Bacteriocin-type signal sequence

Bacteriocin_signal_seq

Conserved_site

1,756

false

Bacteriocins are bacterial peptide products toxic to closely related bacteria. This entry represents a short N-terminal region up to the GG cleavage motif. Processing, to remove this bacteriocin leader peptide, occurs together with export by an ABC transporter.

[]

0

[ "NCBIFAM" ]

[ "TIGR01847" ]

[ "bacteriocin_sig" ]

[ 1756 ]

1

[]

0

[]

0

[]

0

[]

0

null

[ "Bacteria", "Eukaryota", "Methanoplanus endosymbiosus", "bioreactor metagenome", "uncultured Caudovirales phage" ]

[ 1743, 4, 5, 3, 1 ]

5

[]

0

true

Conserved_site

Bacteriocin-type signal sequence

Bacteriocin_signal_seq

7

IPR010134

10,134

Polyhydroxyalkanoate synthesis repressor PhaR

PHA_reg_PhaR

Family

4,631

false

This entry identifies the polyhydroxyalkanoate synthesis repressor, PhaR and related proteins. The gene for PhaR regulatory protein is found in general near other genes encoding proteins associated with polyhydroxyalkanoate (PHA) granule biosynthesis and utilization. It is found to be a DNA-binding homotetramer that is...

[ "GO:0006355" ]

[ "regulation of DNA-templated transcription" ]

[ "biological_process" ]

1

[ "NCBIFAM" ]

[ "TIGR01848" ]

[ "PHA_reg_PhaR" ]

[ 4631 ]

1

[ "GP" ]

[ "GenProp0055" ]

[ "GP:GenProp0055" ]

1

[]

0

[ "PUB00013500", "PUB00013501" ]

[ "12081972", "11914361" ]

[ "A repressor protein, PhaR, regulates polyhydroxyalkanoate (PHA) synthesis via its direct interaction with PHA.", "AniA regulates reserve polymer accumulation and global protein expression in Rhizobium etli." ]

[ 2002, 2002 ]

2

[]

0

null

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

[ 4590, 5, 36 ]

3

[]

0

true

Family

Polyhydroxyalkanoate synthesis repressor PhaR

PHA_reg_PhaR

1

IPR010136

10,136

N-acetyl-gamma-glutamyl-phosphate reductase, type 2

AGPR_type-2

Family

4,318

false

This entry represents the less common of two related families of N-acetyl-gamma-glutamyl-phosphate reductase, an enzyme catalyzing the third step or Arg biosynthesis from Glu. The two families differ by phylogeny, similarity clustering, and gap architecture in a multiple sequence alignment. N-acetyl-gamma-glutamyl-phos...

[ "GO:0003942", "GO:0006526", "GO:0005737" ]

[ "N-acetyl-gamma-glutamyl-phosphate reductase activity", "L-arginine biosynthetic process", "cytoplasm" ]

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

3

[ "HAMAP", "NCBIFAM" ]

[ "MF_01110", "TIGR01851" ]

[ "ArgC_type2", "argC_other" ]

[ 4136, 4317 ]

2

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

[ "1.2.1.38", "GenProp0118", "PWY-5154" ]

[ "EC:1.2.1.38", "GP:GenProp0118", "METACYC:PWY-5154" ]

3

[]

0

[ "PUB00002190", "PUB00002893", "PUB00014499" ]

[ "1339424", "7907589", "12633501" ]

[ "Characterization of the Streptomyces clavuligerus argC gene encoding N-acetylglutamyl-phosphate reductase: expression in Streptomyces lividans and effect on clavulanic acid production.", "A polyprotein precursor of two mitochondrial enzymes in Neurospora crassa. Gene structure and precursor processing.", "N-ac...

[ 1992, 1994, 2003 ]

3

[ "IPR050085" ]

[]

1

0

1

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

[ 4198, 76, 9, 35 ]

4

[]

0

true

Family

N-acetyl-gamma-glutamyl-phosphate reductase, type 2

AGPR_type-2

9

IPR010137

10,137

Acyl-[acyl-carrier-protein]--UDP-N-acetylglucosamine O-acyltransferase

Lipid_A_LpxA

Family

15,923

false

This entry describes LpxA, an enzyme for the biosynthesis of lipid A, a component of lipopolysaccharide (LPS) in the outer membrane outer leaflet of most Gram-negative bacteria. Some differences are found between lipid A of different species, but this protein represents the first step (from UDP-N-acetyl-D-glucosamine) ...

[ "GO:0008780", "GO:0008610" ]

[ "acyl-[acyl-carrier-protein]-UDP-N-acetylglucosamine O-acyltransferase activity", "lipid biosynthetic process" ]

[ "molecular_function", "biological_process" ]

2

[ "HAMAP", "PIRSF", "PANTHER", "NCBIFAM", "CDD" ]

[ "MF_00387", "PIRSF000456", "PTHR43480", "TIGR01852", "cd03351" ]

[ "LpxA", "UDP-GlcNAc_acltr", "", "lipid_A_lpxA", "LbH_UDP-GlcNAc_AT" ]

[ 9389, 14486, 15914, 14310, 14194 ]

5

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

[ "2.3.1.129", "GenProp0204", "GenProp1290", "PWY-8073", "PWY-8245", "PWY-8283" ]

[ "EC:2.3.1.129", "GP:GenProp0204", "GP:GenProp1290", "METACYC:PWY-8073", "METACYC:PWY-8245", "METACYC:PWY-8283" ]

6

[ "1j2z", "1lxa", "2aq9", "2jf2", "2jf3", "2qia", "2qiv", "3hsq", "3i3a", "3i3x", "3r0s", "3t57", "4e6t", "4e6u", "4eqy", "4j09", "4r36", "4r37", "5dem", "5dep", "5dg3", "5f42", "5jxx", "6hy2", "6oss", "6p9p", "6p9q", "6p9r", "6p9s", "6p9t", "6uee", "6ueg"...

49

[ "PUB00047894", "PUB00049010" ]

[ "17434525", "17698807" ]

[ "Nucleotide substrate recognition by UDP-N-acetylglucosamine acyltransferase (LpxA) in the first step of lipid A biosynthesis.", "Structural basis for the acyl chain selectivity and mechanism of UDP-N-acetylglucosamine acyltransferase." ]

[ 2007, 2007 ]

2

[]

0

null

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

[ 14541, 1018, 2, 5, 357 ]

5

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

[ 6, 1, 3, 7 ]

4

true

Family

Acyl-[acyl-carrier-protein]--UDP-N-acetylglucosamine O-acyltransferase

Lipid_A_LpxA

1

IPR010139

10,139

Imidazole glycerol phosphate synthase, subunit H

Imidazole-glycPsynth_HisH

Family

27,083

false

Imidazole glycerol phosphate synthetase (IGPS) is a key metabolic enzyme, which links amino acid and nucleotide biosynthesis: it catalyses the closure of the imidazole ring within histidine biosynthesis (fifth step), and provides the substrate for de novo purine biosynthesis. IGPS consists of two different subunits: Hi...

[ "GO:0016763", "GO:0000105" ]

[ "pentosyltransferase activity", "L-histidine biosynthetic process" ]

[ "molecular_function", "biological_process" ]

2

[ "HAMAP", "PIRSF", "PANTHER", "NCBIFAM", "CDD" ]

[ "MF_00278", "PIRSF000495", "PTHR42701", "TIGR01855", "cd01748" ]

[ "HisH", "Amidotransf_hisH", "", "IMP_synth_hisH", "GATase1_IGP_Synthase" ]

[ 25980, 23884, 24527, 26734, 26060 ]

5

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

[ "3.5.1.2", "4.3.2.10", "GenProp0109", "GenProp0794", "PWY-5921" ]

[ "EC:3.5.1.2", "EC:4.3.2.10", "GP:GenProp0109", "GP:GenProp0794", "METACYC:PWY-5921" ]

5

[ "1gpw", "1jvn", "1k9v", "1ka9", "1kxj", "1ox4", "1ox5", "1ox6", "2wjz", "3zr4", "4gud", "6rtz", "6ru0", "6ymu", "7ac8" ]

15

[ "PUB00014925" ]

[ "11839304" ]

[ "Structural evidence for ammonia tunneling across the (beta alpha)(8) barrel of the imidazole glycerol phosphate synthase bienzyme complex." ]

[ 2002 ]

1

[]

0

null

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

[ 798, 23023, 2679, 583 ]

4

[ "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" ]

[ 4, 1, 1, 5, 1, 1, 21 ]

7

true

Family

Imidazole glycerol phosphate synthase, subunit H

Imidazole-glycPsynth_HisH

1

IPR010140

10,140

Histidinol phosphate phosphatase, HisJ

Histidinol_P_phosphatase_HisJ

Family

10,374

false

This entry represents the histidinol phosphate phosphatase, HisJ of Bacillus subtilis, and related proteins from a number of species within a larger family of phosphatases in the PHP hydrolase family. HisJ catalyses the penultimate step of histidine biosynthesis but shows no homology to the functionally equivalent sequ...

[ "GO:0004401", "GO:0000105" ]

[ "histidinol-phosphatase activity", "L-histidine biosynthetic process" ]

[ "molecular_function", "biological_process" ]

2

[ "PANTHER", "NCBIFAM" ]

[ "PTHR21039", "TIGR01856" ]

[ "", "hisJ_fam" ]

[ 10332, 8577 ]

2

[ "EC", "GP" ]

[ "3.1.3.15", "GenProp0109" ]

[ "EC:3.1.3.15", "GP:GenProp0109" ]

2

[ "2yxo", "2yz5", "2z4g", "3dcp", "4gc3", "4gk8", "4gyf", "6nlr" ]

8

[]

0

[]

0

null

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

[ 211, 8164, 1854, 145 ]

4

[ "Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987)", "Saccharomyces cerevisiae (strain ATCC 204508 / S288c)", "Schizosaccharomyces pombe (strain 972 / ATCC 24843)" ]

[ 1, 1, 1 ]

3

true

Family

Histidinol phosphate phosphatase, HisJ

Histidinol_P_phosphatase_HisJ

4

IPR010141

10,141

Phosphoribosylformylglycinamidine synthase, FGAM

FGAM_synthase

Family

3,185

false

This entry represents a single-molecule form of phosphoribosylformylglycinamidine synthase, also called FGAM synthase, an enzyme of purine de novo biosynthesis, which represent a second clade of the enzymes found in Clostridia, Bifidobacteria and Streptococcus species. This enzyme performs the fourth step in IMP biosyn...

[]

0

[ "NCBIFAM" ]

[ "TIGR01857" ]

[ "FGAM-synthase" ]

[ 3185 ]

1

[ "GP" ]

[ "GenProp0110" ]

[ "GP:GenProp0110" ]

1

[]

0

[]

0

[]

0

null

[ "Bacteria", "Methanocorpusculaceae", "bioreactor metagenome" ]

[ 3172, 6, 7 ]

3

[]

0

true

Family

Phosphoribosylformylglycinamidine synthase, FGAM

FGAM_synthase

3

IPR010142

10,142

Nitrogenase vanadium-iron protein, alpha chain

Nase_V-Fe_asu

Family

78

false

This entry represents the alpha chain of the vanadium-containing component of the vanadium-iron nitrogenase compound I. The complex also includes a second alpha chain, two beta chains and two delta chains. Component I interacts with compound II also known as the iron-protein which transfers electrons to compound I wher...

[ "GO:0016163", "GO:0051212", "GO:0051536", "GO:0009399" ]

[ "nitrogenase activity", "vanadium ion binding", "iron-sulfur cluster binding", "nitrogen fixation" ]

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

4

[ "NCBIFAM" ]

[ "TIGR01860" ]

[ "VNFD" ]

[ 78 ]

1

[ "GP" ]

[ "GenProp0632" ]

[ "GP:GenProp0632" ]

1

[ "5n6y", "6fea", "7adr", "7ady", "7aiz" ]

5

[]

0

[ "IPR005974" ]

[]

1

0

1

[ "Bacteria", "Methanosarcina", "mine drainage metagenome" ]

[ 65, 12, 1 ]

3

[]

0

true

Family

Nitrogenase vanadium-iron protein, alpha chain

Nase_V-Fe_asu

3

IPR010143

10,143

Nitrogenase component 1, alpha chain

Nase_comp1_asu

Family

5,049

false

This entry represents all three varieties (Fe-Fe, Mo-Fe and V-Fe) of the component I alpha chain of nitrogenase. Nitrogenase ( ) [ ] is the enzyme system responsible for biological nitrogen fixation. Nitrogenase is an oligomeric complex which consists of two components: component 2 is an homodimer of an iron-sulphur pr...

[ "GO:0016163", "GO:0051536" ]

[ "nitrogenase activity", "iron-sulfur cluster binding" ]

[ "molecular_function", "molecular_function" ]

2

[ "PANTHER", "NCBIFAM" ]

[ "PTHR43457", "TIGR01862" ]

[ "", "N2-ase-Ialpha" ]

[ 5049, 2357 ]

2

[ "EC" ]

[ "1.18.6.1" ]

[ "EC:1.18.6.1" ]

1

[ "1fp4", "1g20", "1g21", "1h1l", "1l5h", "1m1n", "1m1y", "1m34", "1mio", "1n2c", "1qgu", "1qh1", "1qh8", "2afh", "2afi", "2min", "3k1a", "3min", "3u7q", "4nd8", "4tku", "4tkv", "4wes", "4wn9", "4wna", "4wza", "4wzb", "4xpi", "5bvg", "5bvh", "5cx1", "5koh"...

104

[ "PUB00003737", "PUB00005343" ]

[ "2266945", "2672439" ]

[ "The nifEN genes participating in FeMo cofactor biosynthesis and genes encoding dinitrogenase are part of the same operon in Bradyrhizobium species.", "Nitrogenases without molybdenum." ]

[ 1990, 1989 ]

2

[]

[ "IPR005972", "IPR005974" ]

0

2

0

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

[ 4583, 3, 142, 321 ]

4

[]

0

true

Family

Nitrogenase component 1, alpha chain

Nase_comp1_asu

6

IPR010144

10,144

CRISPR-associated protein, Csd1-type

CRISPR-assoc_prot_Csd1-typ

Family

2,359

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. This entry represents the Csd1 (CRISPR/Cas Subtype DVULG protein 1) family of Cas proteins, which tend to be found near CRISPR repeats of the DVULG ...

[]

0

[ "PFAM", "NCBIFAM" ]

[ "PF09709", "TIGR01863" ]

[ "Cas_Csd1", "cas_Csd1" ]

[ 2359, 2095 ]

2

[ "GP", "GP" ]

[ "GenProp0021", "GenProp0313" ]

[ "GP:GenProp0021", "GP:GenProp0313" ]

2

[ "7kha", "8dej", "8dex", "8dfa", "8dfo", "8dfs", "8g9s", "8g9t", "8g9u", "8gaf", "8gam", "8gan" ]

12

[ "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", "Eukaryota", "Methanomicrobia", "metagenomes" ]

[ 2294, 3, 19, 43 ]

4

[]

0

true

Family

CRISPR-associated protein, Csd1-type

CRISPR-assoc_prot_Csd1-typ

7

IPR010146

10,146

CRISPR-associated protein, Csn2-type

CRISPR-assoc_prot_Csn2-typ

Family

686

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. This entry represents the Csn2 family of Cas proteins, which are found only in CRISPR-containing species, near other CRISPR-associated proteins (cas...

[]

0

[ "PFAM", "NCBIFAM" ]

[ "PF09711", "TIGR01866" ]

[ "Cas_Csn2", "cas_Csn2" ]

[ 583, 684 ]

2

[ "GP", "GP" ]

[ "GenProp0021", "GenProp0314" ]

[ "GP:GenProp0021", "GP:GenProp0314" ]

2

[ "3qhq", "3s5u", "3toc", "3v7f", "6qxf", "6qxt", "6qy3" ]

7

[ "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", "Methanimicrococcus", "human gut metagenome" ]

[ 681, 2, 3 ]

3

[]

0

true

Family

CRISPR-associated protein, Csn2-type

CRISPR-assoc_prot_Csn2-typ

6

IPR010147

10,147

CRISPR-associated protein, CasD

CRISPR-assoc_prot_CasD

Family

3,301

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. This entry represents CasD proteins, which includes CT1976 from Chlorobium tepidum. It shares a small N-terminal homology region with members of sev...

[ "GO:0003723", "GO:0051607" ]

[ "RNA binding", "defense response to virus" ]

[ "molecular_function", "biological_process" ]

2

[ "NCBIFAM" ]

[ "TIGR01868" ]

[ "casD_Cas5e" ]

[ 3301 ]

1

[ "GP", "GP", "GP" ]

[ "GenProp0021", "GenProp0315", "GenProp1179" ]

[ "GP:GenProp0021", "GP:GenProp0315", "GP:GenProp1179" ]

3

[ "4n77", "4qyz", "4tvx", "4u7u", "5cd4", "5h9e", "5h9f", "5u07", "5u0a", "6c66", "8yb6", "8yha", "8zlu", "8zm3", "8zol", "8zp7", "8zp9", "9jxs" ]

18

[ "PUB00043286", "PUB00043287", "PUB00043288", "PUB00060621", "PUB00063810", "PUB00063811", "PUB00071890" ]

[ "17442114", "17379808", "16545108", "21699496", "21460843", "22521689", "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, 2011, 2012, 2014 ]

7

[ "IPR021124" ]

[]

1

0

1

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

[ 3255, 19, 4, 23 ]

4

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

CRISPR-associated protein, CasD

CRISPR-assoc_prot_CasD

2

IPR010148

10,148

CRISPR-associated protein, CT1975

CRISPR-assoc_prot_CT1975

Family

3,458

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. This entry represents a family of Cas proteins, which includes CT1975 of Chlorobium tepidum. This family is also known as Cse4/CasC and Cas7 Type I-...

[]

0

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

[ "PF09344", "TIGR01869", "cd09646" ]

[ "Cas_CT1975", "casC_Cse4", "Cas7_I-E" ]

[ 3458, 3207, 121 ]

3

[ "GP", "GP", "GP" ]

[ "GenProp0021", "GenProp0315", "GenProp1179" ]

[ "GP:GenProp0021", "GP:GenProp0315", "GP:GenProp1179" ]

3

[ "4qyz", "4tvx", "4u7u", "5cd4", "5h9e", "5h9f", "5u07", "5u0a", "6c66", "8ji9", "8yb6", "8yha", "8zlu", "8zm3", "8zol", "8zp7", "8zp9", "9jxs" ]

18

[ "PUB00043286", "PUB00043287", "PUB00043288", "PUB00060621", "PUB00071890", "PUB00078085" ]

[ "17442114", "17379808", "16545108", "21699496", "24459147", "21552286" ]

[ "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, 2011 ]

6

[]

0

null

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

[ 3408, 19, 4, 27 ]

4

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

CRISPR-associated protein, CT1975

CRISPR-assoc_prot_CT1975

6

IPR010152

10,152

CRISPR-associated protein Cas2 subtype

CRISPR-assoc_prot_Cas2_sub

Family

2,674

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. This entry represents a minor branch of the Cas2 family of CRISPR-associated proteins. Cas2 is one of four protein families (Cas1 to Cas4) that are ...

[]

0

[ "PFAM", "NCBIFAM" ]

[ "PF09707", "TIGR01873" ]

[ "Cas_Cas2CT1978", "cas_CT1978" ]

[ 2673, 2640 ]

2

[ "GP", "GP", "GP" ]

[ "GenProp0021", "GenProp0315", "GenProp1196" ]

[ "GP:GenProp0021", "GP:GenProp0315", "GP:GenProp1196" ]

3

[ "4mak", "4p6i", "4qdl", "5dlj", "5dqt", "5dqu", "5dqz", "5ds4", "5ds5", "5ds6", "5vvj", "5vvk", "5vvl", "5wfe", "8fy9", "8fya", "8fyb", "8fyc", "8fyd", "8hi1" ]

20

[ "PUB00009737", "PUB00043286", "PUB00043287", "PUB00043288", "PUB00060621", "PUB00071890" ]

[ "11952905", "17442114", "17379808", "16545108", "21699496", "24459147" ]

[ "Identification of genes that are associated with DNA repeats in prokaryotes.", "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: computati...

[ 2002, 2007, 2007, 2006, 2011, 2014 ]

6

[]

0

null

[ "Bacteria", "Methanomicrobia", "Zopfia rhizophila CBS 207.26", "unclassified sequences" ]

[ 2638, 17, 1, 18 ]

4

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

CRISPR-associated protein Cas2 subtype

CRISPR-assoc_prot_Cas2_sub

1

IPR010153

10,153

CRISPR-associated protein, Cas5a type

CRISPR-assoc_prot_Cas5a-typ

Family

148

false

This entry represents a minor family of CRISPR-associated proteins, which includes MJ0382 from Methanocaldococcus jannaschii (Methanococcus jannaschii). These proteins are found adjacent to a characteristic short, palindromic repeat cluster termed CRISPR, a probable mobile DNA element. The family is designated Cas5a, f...

[]

0

[ "NCBIFAM" ]

[ "TIGR01874" ]

[ "cas_cas5a" ]

[ 148 ]

1

[ "GP", "GP" ]

[ "GenProp0021", "GenProp0319" ]

[ "GP:GenProp0021", "GP:GenProp0319" ]

2

[ "4mjk", "7r21", "7r2k", "7tr6", "7tr8", "7tr9", "7tra", "9cp1", "9cp2", "9cp3", "9cro", "9crp", "9crq" ]

13

[ "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

[ "IPR021124" ]

[]

1

0

1

[ "Archaea", "Bacteria" ]

[ 142, 6 ]

2

[]

0

true

Family

CRISPR-associated protein, Cas5a type

CRISPR-assoc_prot_Cas5a-typ

7

IPR010154

10,154

CRISPR-associated protein Cas7/Cst2/DevR

CRISPR-assoc_Cas7/Cst2/DevR

Family

1,372

false

This entry represents a family of Cas proteins, including the Cas7 (also known as DevR) protein from Myxococcus xanthus. Cas7 is a key regulator of development, and mutants of DevR are incapable of fruiting body development [ ]. The expression of Cas7 appears to be regulated through a number of means, including both lo...

[]

0

[ "PFAM", "NCBIFAM" ]

[ "PF01905", "TIGR01875" ]

[ "DevR", "cas_MJ0381" ]

[ 1208, 1328 ]

2

[ "GP" ]

[ "GenProp0922" ]

[ "GP:GenProp0922" ]

1

[ "3ps0", "4reg", "7r21", "7r2k", "7tr6", "7tr8", "7tr9", "7tra", "9cp1", "9cp2", "9cp3", "9cro", "9crp", "9crq" ]

14

[ "PUB00020781", "PUB00043286", "PUB00043287", "PUB00043288", "PUB00060621", "PUB00071890" ]

[ "16292354", "17442114", "17379808", "16545108", "21699496", "24459147" ]

[ "A guild of 45 CRISPR-associated (Cas) protein families and multiple CRISPR/Cas subtypes exist in prokaryotic genomes.", "Evolutionary conservation of sequence and secondary structures in CRISPR repeats.", "CRISPR provides acquired resistance against viruses in prokaryotes.", "A putative RNA-interference-base...

[ 2005, 2007, 2007, 2006, 2011, 2014 ]

6

[]

[ "IPR002764", "IPR013414", "IPR020032" ]

0

3

0

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

[ 300, 1062, 10 ]

3

[]

0

true

Family

CRISPR-associated protein Cas7/Cst2/DevR

CRISPR-assoc_Cas7/Cst2/DevR

8

IPR010155

10,155

CRISPR pre-crRNA endoribonuclease Cas5d

CRISPR-assoc_prot_Cas5d

Family

2,191

false

This entry represents CRISPR pre-crRNA endoribonuclease Cas5d, which is a sequence-specific endonuclease that cleaves pre-crRNA at G21 into mature crRNA [ ]. 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 CR...

[ "GO:0004519", "GO:0051607" ]

[ "endonuclease activity", "defense response to virus" ]

[ "molecular_function", "biological_process" ]

2

[ "PIRSF", "NCBIFAM" ]

[ "PIRSF029950", "TIGR01876" ]

[ "Cas_CT1134", "cas_Cas5d" ]

[ 2106, 2191 ]

2

[ "GP", "GP" ]

[ "GenProp0021", "GenProp0313" ]

[ "GP:GenProp0021", "GP:GenProp0313" ]

2

[ "3kg4", "3vzh", "3vzi", "4f3m", "4r0j", "7kha", "8dej", "8dex", "8dfa", "8dfo", "8dfs", "8g9s", "8g9t", "8g9u", "8gaf", "8gam", "8gan" ]

17

[ "PUB00043286", "PUB00043287", "PUB00043288", "PUB00060621", "PUB00071890", "PUB00074282" ]

[ "17442114", "17379808", "16545108", "21699496", "24459147", "23006625" ]

[ "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, 2012 ]

6

[ "IPR021124" ]

[]

1

0

1

[ "Bacteria", "Methanomicrobia", "Symbiodinium", "metagenomes" ]

[ 2141, 18, 2, 30 ]

4

[]

0

true

Family

CRISPR pre-crRNA endoribonuclease Cas5d

CRISPR-assoc_prot_Cas5d

2

IPR010156

10,156

CRISPR-associated endoribonuclease Cas6

CRISPR-assoc_prot_Cas6

Family

3,203

false

This entry represents Cas6, a broadly distributed, highly divergent Cas family, including TM1814 from Thermotoga maritima. TM1814 contains a C-terminal motif GXGXXXXXGXG, where the each X between two Gly is hydrophobic and the spacer XXXXX contains (usually) one Arg or Lys. Members of this protein family are found asso...

[ "GO:0016788" ]

[ "hydrolase activity, acting on ester bonds" ]

[ "molecular_function" ]

1

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

[ "PIRSF005054", "PTHR36984", "TIGR01877" ]

[ "PF1131", "", "cas_cas6" ]

[ 964, 2378, 2992 ]

3

[ "GP", "GP", "GP", "GP", "GP", "GP" ]

[ "GenProp0021", "GenProp0317", "GenProp0318", "GenProp0319", "GenProp0320", "GenProp0768" ]

[ "GP:GenProp0021", "GP:GenProp0317", "GP:GenProp0318", "GP:GenProp0319", "GP:GenProp0320", "GP:GenProp0768" ]

6

[ "3i4h", "3pkm", "3qjj", "3qjl", "3qjp", "3ufc", "3zfv", "4c8y", "4c8z", "4c97", "4c98", "4c9d", "4ill", "4ilm", "4ilr", "5yi6", "6fjw" ]

17

[ "PUB00043286", "PUB00043287", "PUB00043288", "PUB00054084", "PUB00060621", "PUB00071890", "PUB00071892" ]

[ "17442114", "17379808", "16545108", "19141480", "21699496", "24459147", "22337052" ]

[ "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, 2008, 2011, 2014, 2012 ]

7

[]

0

null

[ "Archaea", "Bacteria", "Daphnia sinensis", "unclassified sequences" ]

[ 470, 2696, 1, 36 ]

4

[]

0

true

Family

CRISPR-associated endoribonuclease Cas6

CRISPR-assoc_prot_Cas6

9

IPR010157

10,157

CRISPR type I-A/APERN-associated protein Csa5

CRISPR-assoc_Cas5

Family

84

false

This entry represents a minor family of Cas protein found in the (all archaeal) APERN subtype of CRISPR/Cas locus, so the family is designated Csa5, for CRISPR/Cas Subtype Protein 5 [ ] . The CRISPR-Cas system is a prokaryotic defence mechanism against foreign genetic elements. The key elements of this defence system a...

[]

0

[ "PFAM", "NCBIFAM" ]

[ "PF09702", "TIGR01878" ]

[ "Cas_Csa5", "cas_Csa5" ]

[ 71, 66 ]

2

[ "GP", "GP" ]

[ "GenProp0021", "GenProp0319" ]

[ "GP:GenProp0021", "GP:GenProp0319" ]

2

[ "9cro", "9crp", "9crq" ]

3

[ "PUB00020781", "PUB00043286", "PUB00043287", "PUB00043288", "PUB00060621", "PUB00071890" ]

[ "16292354", "17442114", "17379808", "16545108", "21699496", "24459147" ]

[ "A guild of 45 CRISPR-associated (Cas) protein families and multiple CRISPR/Cas subtypes exist in prokaryotic genomes.", "Evolutionary conservation of sequence and secondary structures in CRISPR repeats.", "CRISPR provides acquired resistance against viruses in prokaryotes.", "A putative RNA-interference-base...

[ 2005, 2007, 2007, 2006, 2011, 2014 ]

6

[]

0

null

[ "Actinidia rufa", "Archaea", "Bacteria" ]

[ 1, 72, 11 ]

3

[]

0

true

Family

CRISPR type I-A/APERN-associated protein Csa5

CRISPR-assoc_Cas5

5

IPR010159

10,159

N-acyl-L-amino-acid amidohydrolase

N-acyl_aa_amidohydrolase

Family

4,363

false

This entry represents a family of eukaryotic N-acyl-L-amino-acid amidohydrolase ( ) is a homodimeric zinc-binding mammalian enzyme that catalyzes the hydrolysis of N-alpha-acylated amino acids except L-aspartic acid [ , ]. These enzymes are listed as non-peptidase homologues in MEROPS peptidase family M20A (clan MH). P...

[ "GO:0004046", "GO:0006520", "GO:0005737" ]

[ "aminoacylase activity", "amino acid metabolic process", "cytoplasm" ]

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

3

[ "NCBIFAM" ]

[ "TIGR01880" ]

[ "Ac-peptdase-euk" ]

[ 4363 ]

1

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

[ "3.5.1.14", "R-DDI-5423646", "R-DDI-9753281", "R-HSA-5423646", "R-HSA-5579007", "R-HSA-9753281", "R-MMU-5423646", "R-MMU-9753281", "R-RNO-5423646", "R-RNO-9753281", "R-SSC-5423646", "R-SSC-9753281" ]

[ "EC:3.5.1.14", "REACTOME:R-DDI-5423646", "REACTOME:R-DDI-9753281", "REACTOME:R-HSA-5423646", "REACTOME:R-HSA-5579007", "REACTOME:R-HSA-9753281", "REACTOME:R-MMU-5423646", "REACTOME:R-MMU-9753281", "REACTOME:R-RNO-5423646", "REACTOME:R-RNO-9753281", "REACTOME:R-SSC-5423646", "REACTOME:R-SSC-975...

12

[]

0

[ "PUB00002356", "PUB00003579", "PUB00028006", "PUB00030157" ]

[ "1284246", "7674922", "8394326", "12933810" ]

[ "The primary structure of porcine aminoacylase 1 deduced from cDNA sequence.", "Evolutionary families of metallopeptidases.", "Human aminoacylase-1. Cloning, sequence, and expression analysis of a chromosome 3p21 gene inactivated in small cell lung cancer.", "Essential roles of zinc ligation and enzyme dimeri...

[ 1992, 1995, 1993, 2003 ]

4

[ "IPR002933" ]

[]

1

0

1

[ "Eukaryota" ]

[ 4363 ]

1

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

[ 19, 5, 4, 10, 11, 6, 5, 9, 7 ]

9

true

Family

N-acyl-L-amino-acid amidohydrolase

N-acyl_aa_amidohydrolase

7

IPR010160

10,160

CRISPR-associated protein, Cmr5

CRISPR-assoc_prot_Cmr5

Family

799

false

This entry represents a family of Cas proteins as represented by TM1791.1 from Thermotoga maritima. This family of Cas proteins are found in both archaeal and bacterial species. The CRISPR-Cas system is a prokaryotic defence mechanism against foreign genetic elements. The key elements of this defence system are the Cas...

[]

0

[ "PFAM", "NCBIFAM" ]

[ "PF09701", "TIGR01881" ]

[ "Cas_Cmr5", "cas_Cmr5" ]

[ 753, 668 ]

2

[ "GP", "GP" ]

[ "GenProp0021", "GenProp0316" ]

[ "GP:GenProp0021", "GP:GenProp0316" ]

2

[ "2oeb", "2zop", "3x1l", "4gkf", "6s6b", "6s8b", "6s8e", "6s91", "6sh8", "6shb", "6sic", "9arw" ]

12

[ "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

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

[ 102, 684, 13 ]

3

[]

0

true

Family

CRISPR-associated protein, Cmr5

CRISPR-assoc_prot_Cmr5

3

IPR010161

10,161

Peptidase M20B, tripeptide aminopeptidase

Peptidase_M20B

Family

11,038

false

This entry represents metallopeptidases belonging to MEROPS peptidase family M20 (clan MH), subfamily M20B. They are tripeptide aminopeptidases commonly known as Peptidase T. PepT acts only on tripeptide substrates. It catalyses the release of N-terminal amino acids with hydrophobic side chains from tripeptides with hi...

[ "GO:0008270", "GO:0045148", "GO:0006518" ]

[ "zinc ion binding", "tripeptide aminopeptidase activity", "peptide metabolic process" ]

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

3

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

[ "MF_00550", "PIRSF037215", "TIGR01882", "cd03892" ]

[ "Aminopeptidase_M20", "Peptidase_M20B", "peptidase-T", "M20_peptT" ]

[ 6857, 10777, 11036, 9635 ]

4

[ "EC" ]

[ "3.4.11.4" ]

[ "EC:3.4.11.4" ]

1

[ "1fno", "1vix", "3ife" ]

3

[ "PUB00003579", "PUB00024948" ]

[ "7674922", "11856302" ]

[ "Evolutionary families of metallopeptidases.", "Structure of peptidase T from Salmonella typhimurium." ]

[ 1995, 2002 ]

2

[ "IPR002933" ]

[]

1

0

1

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

[ 10883, 81, 4, 70 ]

4

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Peptidase M20B, tripeptide aminopeptidase

Peptidase_M20B

9

IPR010162

10,162

Methylformimidoylglutamase-like

MFMMG

Family

2,943

false

This entry represents Methylformimidoylglutamase (MFMMG) and Uncharacterized protein YqjE. MFMMG [ec:3.5.3.-] is a hydrolase involved in the degradation of N(tele)-methylhistidine (Ntau-methylhistidine) [ ]. It catalyses the formation of N-methylformamide and L-glutamate from methylformimidoylglutamate. YjqjE could be ...

[]

0

[ "NCBIFAM" ]

[ "TIGR01883" ]

[ "PepT-like" ]

[ 2943 ]

1

[]

0

[ "3gb0", "3rza" ]

2

[ "PUB00024948", "PUB00163239" ]

[ "11856302", "35758414" ]

[ "Structure of peptidase T from Salmonella typhimurium.", "Bacterial Degradation of <i>N</i>τ-Methylhistidine." ]

[ 2002, 2022 ]

2

[ "IPR002933" ]

[]

1

0

1

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

[ 2910, 4, 6, 23 ]

4

[]

0

true

Family

Methylformimidoylglutamase-like

MFMMG

3

IPR010163

10,163

CRISPR-associated CARF protein Csa3

Csa3

Family

339

false

This entry represents CRISPR locus-related putative DNA-binding protein Csa3 in archaea and bacteria. These proteins are associated with CRISPR loci. The C-terminal region of this protein family is homologous to DNA-binding helix-turn-helix domains with predicted transcriptional regulatory activity [ ]. Csa3 proteins c...

[]

0

[ "NCBIFAM" ]

[ "TIGR01884" ]

[ "cas_HTH" ]

[ 339 ]

1

[ "GP", "GP" ]

[ "GenProp0021", "GenProp0319" ]

[ "GP:GenProp0021", "GP:GenProp0319" ]

2

[ "2wte", "6w11", "6wxq" ]

3

[ "PUB00020781", "PUB00055126", "PUB00106905" ]

[ "16292354", "21093452", "35038453" ]

[ "A guild of 45 CRISPR-associated (Cas) protein families and multiple CRISPR/Cas subtypes exist in prokaryotic genomes.", "The structure of the CRISPR-associated protein Csa3 provides insight into the regulation of the CRISPR/Cas system.", "Structural basis of cyclic oligoadenylate binding to the transcription f...

[ 2005, 2011, 2022 ]

3

[]

0

null

[ "Archaea", "bioreactor metagenome", "candidate division WOR-3 bacterium" ]

[ 336, 2, 1 ]

3

[]

0

true

Family

CRISPR-associated CARF protein Csa3

Csa3

1

IPR010164

10,164

Ornithine aminotransferase

Orn_aminotrans

Family

12,301

false

Ornithine aminotransferase catalyses the conversion of L-ornithine and a 2-oxo acid to L-glutamate 5-semialdehyde and an L-amino acid. This enzyme is found in low-GC bacteria, where it is responsible for the fourth step in arginine biosynthesis, and in the mitochondrial matrix of eukaryotes, where it controls L-ornithi...

[ "GO:0004587" ]

[ "ornithine aminotransferase activity" ]

[ "molecular_function" ]

1

[ "NCBIFAM" ]

[ "TIGR01885" ]

[ "Orn_aminotrans" ]

[ 12301 ]

1

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

[ "2.6.1.13", "GenProp1428", "GenProp1472", "PWY-3341", "PWY-6922", "PWY-8187", "R-CEL-8964539", "R-DDI-8964539", "R-DME-8964539", "R-HSA-8964539", "R-MMU-8964539", "R-PFA-8964539", "R-RNO-8964539", "R-SCE-8964539", "R-SPO-8964539" ]

[ "EC:2.6.1.13", "GP:GenProp1428", "GP:GenProp1472", "METACYC:PWY-3341", "METACYC:PWY-6922", "METACYC:PWY-8187", "REACTOME:R-CEL-8964539", "REACTOME:R-DDI-8964539", "REACTOME:R-DME-8964539", "REACTOME:R-HSA-8964539", "REACTOME:R-MMU-8964539", "REACTOME:R-PFA-8964539", "REACTOME:R-RNO-8964539",...

15

[ "1gbn", "1oat", "1z7d", "2byj", "2byl", "2can", "2oat", "3lg0", "3ntj", "3ruy", "4nog", "4zlv", "4zwm", "5dj9", "5e3k", "5e5i", "5eav", "5eqc", "5viu", "5vwo", "6hx7", "6oia", "6v8c", "6v8d", "7jx9", "7lk0", "7lk1", "7lnm", "7lom", "7lon", "7t9z", "7ta0"...

38

[ "PUB00014863" ]

[ "12221166" ]

[ "Peripheral nervous system in gyrate atrophy of the choroid and retina with hyperornithinemia." ]

[ 2002 ]

1

[ "IPR005814" ]

[ "IPR034757" ]

1

0

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

[ 8, 7537, 4687, 69 ]

4

[ "Arabidopsis thaliana", "Caenorhabditis elegans", "Danio rerio", "Drosophila melanogaster", "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", "Saccharomyces cerevisiae (strai...

[ 4, 1, 2, 1, 3, 4, 1, 2, 2, 1, 1, 5 ]

12

true

Family

Ornithine aminotransferase

Orn_aminotrans

2

IPR010165

10,165

Type III-B CRISPR module-associated protein Cmr3

CRISPR-Cmr3_IIIB

Family

297

false

This entry represents a highly divergent family of Cas proteins found in at least ten different archaeal and bacterial species. This family includes TM1793 from Thermotoga maritima. Cmr3 folds into two structural domains that both structurally resemble a ferredoxin-like fold, with a four-stranded antiparallel β-sheet b...

[]

0

[ "NCBIFAM" ]

[ "TIGR01888" ]

[ "cas_cmr3" ]

[ 297 ]

1

[ "GP", "GP" ]

[ "GenProp0021", "GenProp0316" ]

[ "GP:GenProp0021", "GP:GenProp0316" ]

2

[ "3w2v", "3w2w", "3x1l", "4h4k", "6s6b", "6s8b", "6s8e", "6s91", "6sh8", "6shb", "6sic", "9arw" ]

12

[ "PUB00043286", "PUB00043287", "PUB00043288", "PUB00060621", "PUB00071890", "PUB00106894", "PUB00150948" ]

[ "17442114", "17379808", "16545108", "21699496", "24459147", "32730741", "23583914" ]

[ "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, 2020, 2013 ]

7

[ "IPR019117" ]

[]

1

0

1

[ "Archaea", "Bacteria", "Effrenium voratum", "metagenomes" ]

[ 53, 240, 1, 3 ]

4

[]

0

true

Family

Type III-B CRISPR module-associated protein Cmr3

CRISPR-Cmr3_IIIB

9

IPR010166

10,166

Transcriptional regulator SarA/Rot domain

SarA/Rot_dom

Domain

663

false

This entry represents a domain found in a family of transcriptional regulatory proteins in Staphylococcal species, including SarA and Rot. Some members contain two tandem copies of this region. This family is related to the MarR transcriptional regulator family, . SarA is a global regulator with both positive and negat...

[ "GO:0006355" ]

[ "regulation of DNA-templated transcription" ]

[ "biological_process" ]

1

[ "NCBIFAM" ]

[ "TIGR01889" ]

[ "Staph_reg_Sar" ]

[ 663 ]

1

[]

0

[ "1hsj", "1p4x", "2fnp", "2frh", "4q77", "4rbr", "5hs5", "5ywj", "6k8e", "9ilk", "9ill" ]

11

[ "PUB00067869", "PUB00067870", "PUB00083229", "PUB00083230" ]

[ "10809700", "12511508", "15321676", "16077127" ]

[ "Identification, cloning, and initial characterization of rot, a locus encoding a regulator of virulence factor expression in Staphylococcus aureus.", "Global regulation of Staphylococcus aureus genes by Rot.", "Effects of sarA inactivation on the intrinsic multidrug resistance mechanism of Staphylococcus aureu...

[ 2000, 2003, 2004, 2005 ]

4

[]

0

null

[ "Bacteria", "human gut metagenome" ]

[ 661, 2 ]

2

[]

0

true

Domain

Transcriptional regulator SarA/Rot domain

SarA/Rot_dom

4

IPR010167

10,167

Amino-acid N-acetyltransferase

NH2A_AcTrfase

Family

9,115

false

This entry represents amino-acid N-acetyltransferase or N-acetylglutamate synthase, which is the product of the argA gene and the first enzyme in arginine biosynthesis. This enzyme displays more diversity between bacteria, fungi and mammals than other enzymes in arginine metabolism, and N-acetylglutamate itself can hav...

[ "GO:0004042", "GO:0006526", "GO:0005737" ]

[ "L-glutamate N-acetyltransferase activity", "L-arginine biosynthetic process", "cytoplasm" ]

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

3

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

[ "MF_01105", "NF003641", "PIRSF000423", "PTHR30602", "TIGR01890" ]

[ "N_acetyl_glu_synth", "PRK05279.1", "ArgA", "", "N-Ac-Glu-synth" ]

[ 6850, 5662, 6377, 8845, 6713 ]

5

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

[ "2.3.1.1", "GenProp0118", "GenProp1466", "PWY-5154" ]

[ "EC:2.3.1.1", "GP:GenProp0118", "GP:GenProp1466", "METACYC:PWY-5154" ]

4

[ "2r8v", "2r98", "3b8g", "3d2m", "3d2p", "3e0k", "4i49" ]

7

[ "PUB00014499", "PUB00014891" ]

[ "12633501", "9572954" ]

[ "N-acetylglutamate and its changing role through evolution.", "Use of inducible feedback-resistant N-acetylglutamate synthetase (argA) genes for enhanced arginine biosynthesis by genetically engineered Escherichia coli K-12 strains." ]

[ 2003, 1998 ]

2

[]

0

null

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

[ 7035, 1914, 60, 106 ]

4

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

[ 16, 1, 12, 32 ]

4

true

Family

Amino-acid N-acetyltransferase

NH2A_AcTrfase

9

IPR010171

10,171

CRISPR system endoribonuclease Csx1

CRISPR_Csx1

Family

142

false

This entry represents a family of Cas proteins including CRISPR system endoribonuclease Csx1. This family was previously known as CRISPR-associated protein, MJ1666 family. The CRISPR-Cas system is a prokaryotic defence mechanism against foreign genetic elements. The key elements of this defence system are the Cas prote...

[]

0

[ "NCBIFAM" ]

[ "TIGR01897" ]

[ "cas_MJ1666" ]

[ 142 ]

1

[ "GP" ]

[ "GenProp0021" ]

[ "GP:GenProp0021" ]

1

[ "2i71", "4eog", "6o6s", "6o6t", "6o6v", "6o6x", "6o6y", "6o6z", "6o70", "6o71", "6ov0" ]

11

[ "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

[ "Archaea", "Bacteria" ]

[ 88, 54 ]

2

[]

0

true

Family

CRISPR system endoribonuclease Csx1

CRISPR_Csx1

4

IPR010172

10,172

CRISPR-associated protein, TM1791

CRISPR-assoc_prot_TM1791

Family

986

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. This family represents a family of Cas proteins that includes TM1791. This family is both closely related to and frequently encoded next to the TM17...

[]

0

[ "PANTHER", "NCBIFAM" ]

[ "PTHR39965", "TIGR01898" ]

[ "", "cas_TM1791_cmr6" ]

[ 974, 866 ]

2

[ "GP", "GP" ]

[ "GenProp0021", "GenProp0316" ]

[ "GP:GenProp0021", "GP:GenProp0316" ]

2

[ "3x1l", "4w8v", "6s6b", "6s8b", "6s8e", "6s91", "6sh8", "6shb", "6sic", "9arw" ]

10

[ "PUB00014786", "PUB00043286", "PUB00043287", "PUB00043288", "PUB00060621", "PUB00071890" ]

[ "11788711", "17442114", "17379808", "16545108", "21699496", "24459147" ]

[ "A DNA repair system specific for thermophilic Archaea and bacteria predicted by genomic context analysis.", "Evolutionary conservation of sequence and secondary structures in CRISPR repeats.", "CRISPR provides acquired resistance against viruses in prokaryotes.", "A putative RNA-interference-based immune sys...

[ 2002, 2007, 2007, 2006, 2011, 2014 ]

6

[]

0

null

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

[ 130, 841, 15 ]

3

[]

0

true

Family

CRISPR-associated protein, TM1791

CRISPR-assoc_prot_TM1791

1

IPR010174

10,174

Succinyl-diaminopimelate desuccinylase, DapE

Succinyl-DAP_deSuclase_DapE

Family

4,679

false

Two lysine biosynthesis pathways evolved separately in organisms, the diaminopimelic acid (DAP) and aminoadipic acid (AAA) pathways. The DAP pathway synthesizes L-lysine from aspartate and pyruvate, and diaminopimelic acid is an intermediate. This pathway is utilised by most bacteria, some archaea, some fungi, some alg...

[ "GO:0009014", "GO:0009089" ]

[ "succinyl-diaminopimelate desuccinylase activity", "L-lysine biosynthetic process via diaminopimelate" ]

[ "molecular_function", "biological_process" ]

2

[ "NCBIFAM" ]

[ "TIGR01900" ]

[ "dapE-gram_pos" ]

[ 4679 ]

1

[ "EC", "GP" ]

[ "3.5.1.18", "GenProp0786" ]

[ "EC:3.5.1.18", "GP:GenProp0786" ]

2

[ "3tx8" ]

1

[ "PUB00013759", "PUB00055043" ]

[ "7881553", "20418392" ]

[ "Analysis of different DNA fragments of Corynebacterium glutamicum complementing dapE of Escherichia coli.", "Methanococci use the diaminopimelate aminotransferase (DapL) pathway for lysine biosynthesis." ]

[ 1994, 2010 ]

2

[ "IPR002933" ]

[]

1

0

1

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

[ 4594, 2, 83 ]

3

[]

0

true

Family

Succinyl-diaminopimelate desuccinylase, DapE

Succinyl-DAP_deSuclase_DapE

2

IPR010175

10,175

[LysW]-lysine/[LysW]-ornithine hydrolase

LysK

Family

1,023

false

Several bacteria and archaea utilize the amino group-carrier protein, LysW, for lysine biosynthesis from alpha-aminoadipate (AAA). In some cases, such as Sulfolobus, LysW is also used to protect the amino group of glutamate in arginine biosynthesis. After LysW modification, AAA and glutamate are converted to lysine and...

[ "GO:0008270", "GO:0016811", "GO:0050897", "GO:0009085" ]

[ "zinc ion binding", "hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides", "cobalt ion binding", "L-lysine biosynthetic process" ]

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

4

[ "HAMAP", "NCBIFAM" ]

[ "MF_01120", "TIGR01902" ]

[ "LysK", "dapE-lys-deAc" ]

[ 819, 1020 ]

2

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

[ "3.5.1.130", "3.5.1.132", "GenProp0118", "GenProp0193", "PWY-3081", "PWY-7400" ]

[ "EC:3.5.1.130", "EC:3.5.1.132", "GP:GenProp0118", "GP:GenProp0193", "METACYC:PWY-3081", "METACYC:PWY-7400" ]

6

[ "4q7a", "5xoy" ]

2

[ "PUB00013769", "PUB00083921" ]

[ "11852094", "23434852" ]

[ "Characterization of a lysK gene as an argE homolog in Thermus thermophilus HB27.", "Lysine and arginine biosyntheses mediated by a common carrier protein in Sulfolobus." ]

[ 2002, 2013 ]

2

[ "IPR002933" ]

[]

1

0

1

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

[ 525, 489, 9 ]

3

[]

0

true

Family

[LysW]-lysine/[LysW]-ornithine hydrolase

LysK

4

IPR010176

10,176

CxxxxCH...CXXCH motif, Geobacter sulfurreducens

C4xCH_C2xCH_motif_GEOSU

Repeat

325

false

This motif occurs from three to eight times in eight different proteins of Geobacter sulfurreducens and similar proteins mainly found in Thermodesulfobacteriota. The final CXXCH motif matches the cytochrome c family haem-binding site signature, suggesting that the sequence may be involved in haem-binding.

[]

0

[ "PFAM", "NCBIFAM" ]

[ "PF09698", "TIGR01904" ]

[ "GSu_C4xC__C2xCH", "GSu_C4xC__C2xCH" ]

[ 275, 321 ]

2

[]

0

[]

0

[]

0

[]

0

null

[ "Bacteria", "ecological metagenomes" ]

[ 320, 5 ]

2

[]

0

true

Repeat

CxxxxCH...CXXCH motif, Geobacter sulfurreducens

C4xCH_C2xCH_motif_GEOSU

1

IPR010177

10,177

Doubled CXXCH motif

Paired_CXXCH_1

Domain

3,838

false

This entry represents a domain of about 41 amino acids that contains, among other motifs, two copies of the CXXCH motif associated with haem binding. Most proteins in this entry have at least three copies of this domain (i.e. at least six copies of CXXCH) and are predicted to be high molecular weight c-type cytochromes...

[]

0

[ "PFAM", "NCBIFAM" ]

[ "PF09699", "TIGR01905" ]

[ "Paired_CXXCH_1", "paired_CXXCH_1" ]

[ 3814, 1488 ]

2

[]

0

[ "6qvm", "6r2q", "7tfs" ]

3

[]

0

[]

0

null

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

[ 21, 3593, 3, 221 ]

4

[]

0

true

Domain

Doubled CXXCH motif

Paired_CXXCH_1

3

IPR010178

10,178

Lipoprotein intramolecular transacylase Lit

Lit

Family

3,212

false

This entry represents the lipoprotein intramolecular transacylase, Lit [ , ]. Lit creates a lipoprotein that is less immunogenic, possibly enabling the bacteria to gain a foothold in the host by stealth. The crystal structure of the Lit enzyme from Bacillus cereus ( ) revealed that it consists of consists of four trans...

[]

0

[ "PFAM", "NCBIFAM" ]

[ "PF07314", "TIGR01906" ]

[ "Lit", "integ_TIGR01906" ]

[ 3212, 2885 ]

2

[]

0

[ "7b0o", "7b0p", "7b0q", "7b0r" ]

4

[ "PUB00158976", "PUB00158977" ]

[ "28320885", "34253723" ]

[ "Identification of the Lyso-Form <i>N</i>-Acyl Intramolecular Transferase in Low-GC Firmicutes.", "Structural basis of the membrane intramolecular transacylase reaction responsible for lyso-form lipoprotein synthesis." ]

[ 2017, 2021 ]

2

[]

0

null

[ "Bacteria", "Candidatus Iainarchaeum sp.", "Eukaryota", "metagenomes" ]

[ 3149, 1, 8, 54 ]

4

[]

0

true

Family

Lipoprotein intramolecular transacylase Lit

Lit

8

IPR010179

10,179

CRISPR-associated protein Cse3

CRISPR-assoc_prot_Cse3

Family

3,639

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. This entry represents the Cse3 (CRISPR/Cas Subtype Ecoli protein 3, also known as CasE) family of Cas proteins. The Thermus thermophilus HB8 family ...

[]

0

[ "PFAM", "SMART", "NCBIFAM" ]

[ "PF08798", "SM01101", "TIGR01907" ]

[ "CRISPR_assoc", "CRISPR_assoc", "casE_Cse3" ]

[ 3633, 3454, 3176 ]

3

[ "GP", "GP", "GP" ]

[ "GenProp0021", "GenProp0315", "GenProp1179" ]

[ "GP:GenProp0021", "GP:GenProp0315", "GP:GenProp1179" ]

3

[ "1wj9", "2y8w", "2y8y", "2y9h", "3qrp", "3qrq", "3qrr", "4dzd", "4qyz", "4tvx", "4u7u", "5cd4", "5h9e", "5h9f", "5u07", "5u0a", "6c66", "8yb6", "8yha", "8zlu", "8zm3", "8zol", "8zp7", "9jxs" ]

24

[ "PUB00038091", "PUB00043286", "PUB00043287", "PUB00043288", "PUB00060621", "PUB00071890" ]

[ "16672237", "17442114", "17379808", "16545108", "21699496", "24459147" ]

[ "Crystal structure of hypothetical protein TTHB192 from Thermus thermophilus HB8 reveals a new protein family with an RNA recognition motif-like domain.", "Evolutionary conservation of sequence and secondary structures in CRISPR repeats.", "CRISPR provides acquired resistance against viruses in prokaryotes.", ...

[ 2006, 2007, 2007, 2006, 2011, 2014 ]

6

[]

0

null

[ "Bacteria", "Methanomicrobia", "Opisthokonta", "Siphoviridae sp. ct3CA7", "unclassified sequences" ]

[ 3590, 19, 2, 1, 27 ]

5

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

CRISPR-associated protein Cse3

CRISPR-assoc_prot_Cse3

1

IPR010180

10,180

CRISPR-associated protein, CXXC-CXXC

CRISPR-assoc_prot_CXXC-CXXC

Family

430

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. This entry represents a conserved region from an otherwise highly divergent protein found in the Tneap subtype of CRISPR/Cas regions. This Cys-rich ...

[]

0

[ "NCBIFAM" ]

[ "TIGR01908" ]

[ "cas_CXXC_CXXC" ]

[ 430 ]

1

[ "GP", "GP" ]

[ "GenProp0021", "GenProp0317" ]

[ "GP:GenProp0021", "GP:GenProp0317" ]

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

[ "Archaea", "Bacteria", "Eukaryota", "hot springs metagenome" ]

[ 50, 377, 2, 1 ]

4

[]

0

true

Family

CRISPR-associated protein, CXXC-CXXC

CRISPR-assoc_prot_CXXC-CXXC

1

IPR010181

10,181

CGCAxxGCC motif

CGCAxxGCC_motif

Family

4,101

false

This entry represents a putative redox-active protein of about 140 residues, with four perfectly conserved Cys residues. It includes a CGAXXG motif. Most members are found within one or two loci of transporter or oxidoreductase genes. A member from Geobacter sulfurreducens, located in a molybdenum transporter operon, h...

[]

0

[ "PFAM", "NCBIFAM" ]

[ "PF09719", "TIGR01909" ]

[ "C_GCAxxG_C_C", "C_GCAxxG_C_C" ]

[ 4101, 3030 ]

2

[]

0

[ "1h21" ]

1

[]

0

[]

0

null

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

[ 118, 3799, 8, 176 ]

4

[]

0

true

Family

CGCAxxGCC motif

CGCAxxGCC_motif

4

IPR010182

10,182

N-formyl-4-amino-5-aminomethyl-2-methylpyrimidine deformylase/Succinyl-diaminopimelate desuccinylase

ArgE/DapE

Family

8,946

false

This entry represents N-formyl-4-amino-5-aminomethyl-2-methylpyrimidine deformylase and succinyl-diaminopimelate desuccinylase enzymes. The former enzyme catalyses the deformylation of formylaminopyrimidine to give aminopyrimidine. The latter enzyme catalyses the hydrolysis of N-succinyl-L,L-diaminopimelic acid (SDAP),...

[]

0

[ "NCBIFAM" ]

[ "TIGR01910" ]

[ "DapE-ArgE" ]

[ 8946 ]

1

[ "EC", "GP" ]

[ "3.5.1.18", "GenProp0118" ]

[ "EC:3.5.1.18", "GP:GenProp0118" ]

2

[ "3pfo", "7uoi", "8vkt" ]

3

[]

0

[ "IPR002933" ]

[ "IPR033687" ]

1

0

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

[ 565, 7859, 441, 81 ]

4

[]

0

true

Family

N-formyl-4-amino-5-aminomethyl-2-methylpyrimidine deformylase/Succinyl-diaminopimelate desuccinylase

ArgE/DapE

9

IPR010183

10,183

Bacteriophage lambda, Recombination protein bet

Phage_lambda_Bet

Family

1,733

false

This entry represents Recombination protein bet from Bacteriophage lambda (Bet, also known as red-beta). Bet functions in general recombination and in the late, rolling-circle mode of lambda DNA replication. It has a function similar to that of E.coli recT. It is a single-stranded DNA binding protein that can promote r...

[ "GO:0006310" ]

[ "DNA recombination" ]

[ "biological_process" ]

1

[ "NCBIFAM" ]

[ "TIGR01913" ]

[ "bet_lambda" ]

[ 1733 ]

1

[]

0

[ "7ujl" ]

1

[ "PUB00099988", "PUB00099990", "PUB00099991" ]

[ "30624736", "34299376", "26780547" ]

[ "Crystal structure of the Redβ C-terminal domain in complex with λ Exonuclease reveals an unexpected homology with λ Orf and an interaction with Escherichia coli single stranded DNA binding protein.", "Mutational Analysis of Redβ Single Strand Annealing Protein: Roles of the 14 Lysine Residues in DNA Binding and ...

[ 2019, 2021, 2016 ]

3

[ "IPR018330" ]

[]

1

0

1

[ "Bacteria", "Ecdysozoa", "Methanomicrobia", "Viruses", "metagenomes" ]

[ 1529, 4, 3, 163, 34 ]

5

[]

0

true

Family

Bacteriophage lambda, Recombination protein bet

Phage_lambda_Bet

2

IPR010184

10,184

CRISPR-associated protein, MJ0385

CRISPR-assoc_prot_MJ0385

Family

36

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. This entry represents a family of Cas proteins that tends to be found near CRISPR repeats. The species range for famliy members, so far, is exclusiv...

[]

0

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

[ "PF09703", "TIGR01914", "cd09666" ]

[ "Cas_Csa4", "cas_Csa4", "Cas8a2_I-A" ]

[ 36, 16, 9 ]

3

[ "GP", "GP" ]

[ "GenProp0021", "GenProp0319" ]

[ "GP:GenProp0021", "GP:GenProp0319" ]

2

[ "7r2k", "7tr6", "7tr8", "7tr9", "7tra" ]

5

[ "PUB00043286", "PUB00043287", "PUB00043288", "PUB00060621", "PUB00071890", "PUB00078085" ]

[ "17442114", "17379808", "16545108", "21699496", "24459147", "21552286" ]

[ "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, 2011 ]

6

[]

0

null

[ "Archaea" ]

[ 36 ]

1

[]

0

true

Family

CRISPR-associated protein, MJ0385

CRISPR-assoc_prot_MJ0385

6

IPR010185

10,185

NADPH-dependent F420 reductase

NpdG

Family

3,096

false

Members of this family are found only in species with evidence of coenzyme F420. All members of this family are believed to act as NADPH-dependent F420 reductase. This entry includes Methanothermobacter marburgensis fno, which catalyses the reduction of NADP+ with F420H2 via hydride transfer, and the reverse reaction, ...

[ "GO:0016651", "GO:0050661", "GO:0070967", "GO:0006740" ]

[ "oxidoreductase activity, acting on NAD(P)H", "NADP binding", "coenzyme F420 binding", "NADPH regeneration" ]

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

4

[ "NCBIFAM" ]

[ "TIGR01915" ]

[ "npdG" ]

[ 3096 ]

1

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

[ "1.5.1.40", "GenProp0002", "GenProp0791" ]

[ "EC:1.5.1.40", "GP:GenProp0002", "GP:GenProp0791" ]

3

[ "1jax", "1jay", "5n2i" ]

3

[ "PUB00037008", "PUB00076438" ]

[ "11726492", "9821972" ]

[ "Structures of F420H2:NADP+ oxidoreductase with and without its substrates bound.", "F420H2:NADP oxidoreductase from Methanobacterium thermoautotrophicum: identification of the encoding gene via functional overexpression in Escherichia coli." ]

[ 2001, 1998 ]

2

[]

0

null

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

[ 699, 2285, 8, 104 ]

4

[]

0

true

Family

NADPH-dependent F420 reductase

NpdG

8

IPR010186

10,186

Glycine reductase, selenoprotein B

Gly_red_sel_B

Family

356

false

Glycine reductase is a complex with two selenoprotein subunits, A and B. This entry represents the glycine reductase selenoprotein B. Closely related proteins not matched by this entry include selenoprotein B subunits of betaine reductase and sarcosine reductase. All contain selenocysteine incorporated during translati...

[ "GO:0030699", "GO:0050485", "GO:0030700" ]

[ "glycine reductase activity", "oxidoreductase activity, acting on X-H and Y-H to form an X-Y bond, with a disulfide as acceptor", "glycine reductase complex" ]

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

3

[ "NCBIFAM" ]

[ "TIGR01917" ]

[ "gly_red_sel_B" ]

[ 356 ]

1

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

[ "1.21.4.2", "PWY-8015", "PWY-8303" ]

[ "EC:1.21.4.2", "METACYC:PWY-8015", "METACYC:PWY-8303" ]

3

[]

0

[]

0

[ "IPR010187" ]

[]

1

0

1

[ "Bacteria" ]

[ 356 ]

1

[]

0

true

Family

Glycine reductase, selenoprotein B

Gly_red_sel_B

5

IPR010187

10,187

Selenoprotein B, glycine/betaine/sarcosine/D-proline reductase

Various_sel_PB

Family

2,462

false

This entry represents selenoprotein B of glycine reductase, sarcosine reductase, betaine reductase, D-proline reductase, and perhaps others [ ]. All members are expected to contain an internal TGA codon, encoding selenocysteine, which may be misinterpreted as a stop codon.

[ "GO:0050485" ]

[ "oxidoreductase activity, acting on X-H and Y-H to form an X-Y bond, with a disulfide as acceptor" ]

[ "molecular_function" ]

1

[ "PFAM", "NCBIFAM" ]

[ "PF07355", "TIGR01918" ]

[ "GRDB", "various_sel_PB" ]

[ 2090, 1800 ]

2

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

[ "1.21.4.2", "PWY-8015", "PWY-8303" ]

[ "EC:1.21.4.2", "METACYC:PWY-8015", "METACYC:PWY-8303" ]

3

[]

0

[ "PUB00019650" ]

[ "8529639" ]

[ "Purification and characterization of protein PB of betaine reductase and its relationship to the corresponding proteins glycine reductase and sarcosine reductase from Eubacterium acidaminophilum." ]

[ 1995 ]

1

[]

[ "IPR010186", "IPR022787", "IPR048083" ]

0

3

0

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

[ 2353, 11, 98 ]

3

[]

0

true

Family

Selenoprotein B, glycine/betaine/sarcosine/D-proline reductase

Various_sel_PB

3

IPR010188

10,188

HisA/PriA, Actinobacteria

HisA/PriA_Actinobacteria

Family

4,426

false

This entry includes HisA (1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase) and HisA homologues from Actinobacteria, known as PriA (phosphoribosyl Isomerase A). These enzymes are involved in both the histidine and tryptophan biosynthetic pathways. In addition to their a...

[ "GO:0003949", "GO:0004640", "GO:0000105", "GO:0000162", "GO:0005737" ]

[ "1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino]imidazole-4-carboxamide isomerase activity", "phosphoribosylanthranilate isomerase activity", "L-histidine biosynthetic process", "L-tryptophan biosynthetic process", "cytoplasm" ]

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

5

[ "NCBIFAM" ]

[ "TIGR01919" ]

[ "hisA-trpF" ]

[ 4426 ]

1

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

[ "5.3.1.16", "GenProp0037", "GenProp0109" ]

[ "EC:5.3.1.16", "GP:GenProp0037", "GP:GenProp0109" ]

3

[ "1vzw", "2vep", "2x30", "2y85", "2y88", "2y89", "3zs4", "4axk", "4tx9", "4u28", "4w9t", "4wd0", "4x2r", "4x9s", "5dn1" ]

15

[ "PUB00093465" ]

[ "26058375" ]

[ "Insights into the evolution of enzyme substrate promiscuity after the discovery of (βα)₈ isomerase evolutionary intermediates from a diverse metagenome." ]

[ 2015 ]

1

[ "IPR023016" ]

[]

1

0

1

[ "Bacteria", "Rhynchospora breviuscula", "metagenomes" ]

[ 4289, 1, 136 ]

3

[]

0

true

Family

HisA/PriA, Actinobacteria

HisA/PriA_Actinobacteria

7

IPR010189

10,189

Shikimate kinase, archaea

SK_arc

Family

780

false

Shikimate kinase ( ) catalyses the fifth step in the shikimate pathway of aromatic amino acids biosynthesis. It converts shikimate to shikimate 3-phosphate (3-phosphoshikimate). This part of the pathway leads to the biosynthesis of chorismate, the precursor of aromatic amino acids, folates, ubiquinones, and other aroma...

[ "GO:0004765", "GO:0009073", "GO:0005737" ]

[ "shikimate kinase activity", "aromatic amino acid family biosynthetic process", "cytoplasm" ]

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

3

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

[ "MF_00370", "PIRSF005758", "TIGR01920" ]

[ "Shik_kinase_arch", "Shikimt_kin_arch", "Shik_kin_archae" ]

[ 770, 737, 779 ]

3

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

[ "2.7.1.71", "GenProp0001", "GenProp1478", "PWY-6163" ]

[ "EC:2.7.1.71", "GP:GenProp0001", "GP:GenProp1478", "METACYC:PWY-6163" ]

4

[]

0

[ "PUB00003386", "PUB00013836", "PUB00014334" ]

[ "9600856", "11114929", "15012217" ]

[ "The three-dimensional structure of shikimate kinase.", "Archaeal shikimate kinase, a new member of the GHMP-kinase family.", "THE SHIKIMATE PATHWAY." ]

[ 1998, 2001, 1999 ]

3

[]

0

null

[ "Archaea", "ecological metagenomes" ]

[ 768, 12 ]

2

[]

0

true

Family

Shikimate kinase, archaea

SK_arc

3

IPR010191

10,191

IMP cyclohydrolase

IMP_cyclohydrolase

Family

469

false

This entry represents IMP cyclohydrolase, which catalyses the cyclisation of 5-formylamidoimidazole-4-carboxamide ribonucleotide to inosine monophosphate (IMP), a reaction which is important in de novo purine biosynthesis in archaeal species [ ]. This single domain protein is arranged to form an overall fold that consi...

[ "GO:0003937", "GO:0006164", "GO:0006188" ]

[ "IMP cyclohydrolase activity", "purine nucleotide biosynthetic process", "IMP biosynthetic process" ]

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

3

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

[ "MF_00705", "PIRSF004866", "TIGR01922" ]

[ "IMP_cyclohydrol", "IMP_cclhdr_arch", "purO_arch" ]

[ 464, 448, 459 ]

3

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

[ "3.5.4.10", "GenProp0110", "PWY-6123", "PWY-6124", "PWY-7234" ]

[ "EC:3.5.4.10", "GP:GenProp0110", "METACYC:PWY-6123", "METACYC:PWY-6124", "METACYC:PWY-7234" ]

5

[ "1kuu", "2ntk", "2ntl", "2ntm" ]

4

[ "PUB00013793", "PUB00016548" ]

[ "11844782", "12012346" ]

[ "New class of IMP cyclohydrolases in Methanococcus jannaschii.", "Crystal structure of Methanobacterium thermoautotrophicum conserved protein MTH1020 reveals an NTN-hydrolase fold." ]

[ 2002, 2002 ]

2

[]

0

null

[ "Bacteria", "Methanobacteriota", "ecological metagenomes" ]

[ 13, 454, 2 ]

3

[]

0

true

Family

IMP cyclohydrolase

IMP_cyclohydrolase

8

IPR010192

10,192

2-succinylbenzoate--CoA ligase

MenE

Family

4,731

false

This entry represents the enzyme O-succinylbenzoate-CoA ligase (MenE), which is involved in the fourth step of the menaquinone (vitamin K2) biosynthesis pathway. In bacteria, menaquinone is used during fumarate reduction in anaerobic respiration. In green sulphur bacteria and heliobacteria, menaquinones are thought to ...

[ "GO:0005524", "GO:0008756", "GO:0009234" ]

[ "ATP binding", "o-succinylbenzoate-CoA ligase activity", "menaquinone biosynthetic process" ]

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

3

[ "HAMAP", "NCBIFAM" ]

[ "MF_00731", "TIGR01923" ]

[ "MenE", "menE" ]

[ 2636, 4725 ]

2

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

[ "6.2.1.26", "GenProp0058", "GenProp1560", "PWY-5837" ]

[ "EC:6.2.1.26", "GP:GenProp0058", "GP:GenProp1560", "METACYC:PWY-5837" ]

4

[ "3ipl", "5buq", "5bur", "5bus", "5c5h", "5gtd", "5x8f", "5x8g", "6nj0" ]

9

[ "PUB00014943" ]

[ "12615349" ]

[ "The menD and menE homologs code for 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylate synthase and O-succinylbenzoic acid-CoA synthase in the phylloquinone biosynthetic pathway of Synechocystis sp. PCC 6803." ]

[ 2003 ]

1

[]

0

null

[ "Bacteria", "Bilateria", "Halobacteriales", "metagenomes" ]

[ 4587, 2, 133, 9 ]

4

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

2-succinylbenzoate--CoA ligase

MenE

3

IPR010193

10,193

Serine-protein kinase RsbW

RsbW

Family

1,199

false

This entry describes the serine-protein kinase RsbW also known as the anti-sigma B factor. Sigma B controls the general stress regulon in B subtilis and is activated by cell stresses such as stationary phase and heat shock. RsbW binds to sigma B and prevents formation of the transcription complex at the promoter [ ]. R...

[ "GO:0004674", "GO:0005524", "GO:0016989", "GO:0006468", "GO:0045892" ]

[ "protein serine/threonine kinase activity", "ATP binding", "sigma factor antagonist activity", "protein phosphorylation", "negative regulation of DNA-templated transcription" ]

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

5

[ "HAMAP", "NCBIFAM" ]

[ "MF_00638", "TIGR01924" ]

[ "Anti_sigma_B", "rsbW_low_gc" ]

[ 1126, 1199 ]

2

[ "EC" ]

[ "2.7.11.1" ]

[ "EC:2.7.11.1" ]

1

[ "6m36", "6m37" ]

2

[ "PUB00013752", "PUB00013846", "PUB00013851" ]

[ "8460143", "8808936", "8144446" ]

[ "Bacillus subtilis sigma B is regulated by a binding protein (RsbW) that blocks its association with core RNA polymerase.", "Reactivation of the Bacillus subtilis anti-sigma B antagonist, RsbV, by stress- or starvation-induced phosphatase activities.", "Interactions between a Bacillus subtilis anti-sigma factor...

[ 1993, 1996, 1994 ]

3

[]

0

null

[ "Bacilli" ]

[ 1199 ]

1

[]

0

true

Family

Serine-protein kinase RsbW

RsbW

8

IPR010194

10,194

Anti-sigma F factor

Anti-sigma_F

Family

2,592

false

This entry describes the SpoIIAB anti-sigma F factor. Sigma F regulates spore development in B subtilis. SpoIIAB binds to sigma F, preventing formation of the transcription complex at the promoter [ ]. SpoIIAA (anti-anti-sigma F factor) binds to SpoIIAB to inhibit association with sigma F, however SpoIIAB can phosphory...

[ "GO:0004674", "GO:0005524", "GO:0016989", "GO:0006468", "GO:0042174", "GO:0045892" ]

[ "protein serine/threonine kinase activity", "ATP binding", "sigma factor antagonist activity", "protein phosphorylation", "negative regulation of sporulation resulting in formation of a cellular spore", "negative regulation of DNA-templated transcription" ]

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

6

[ "HAMAP", "NCBIFAM" ]

[ "MF_00637", "TIGR01925" ]

[ "Anti_sigma_F", "spIIAB" ]

[ 2507, 2573 ]

2

[ "EC", "GP" ]

[ "2.7.11.1", "GenProp0610" ]

[ "EC:2.7.11.1", "GP:GenProp0610" ]

2

[ "1l0o", "1th8", "1thn", "1tid", "1til" ]

5

[ "PUB00013753", "PUB00013778" ]

[ "8460142", "8358793" ]

[ "SpoIIAB is an anti-sigma factor that binds to and inhibits transcription by regulatory protein sigma F from Bacillus subtilis.", "Sigma F, the first compartment-specific transcription factor of B. subtilis, is regulated by an anti-sigma factor that is also a protein kinase." ]

[ 1993, 1993 ]

2

[]

0

null

[ "Bacteria", "Phytophthora kernoviae 00238/432", "metagenomes" ]

[ 2576, 1, 15 ]

3

[]

0

true

Family

Anti-sigma F factor

Anti-sigma_F

1

IPR010195

10,195

Uncharacterised peroxidase-related

Uncharacterised_peroxidase-rel

Family

7,722

false

Members of this family are conserved hypothetical proteins of around 200 amino acids in length. Many of them contain an akylhydroperoxidase (AhpD) domain.

[]

0

[ "NCBIFAM" ]

[ "TIGR01926" ]

[ "peroxid_rel" ]

[ 7722 ]

1

[]

0

[ "2oyo", "2pfx", "2prr", "3c1l", "6k40" ]

5

[]

0

[]

[ "IPR023923" ]

0

1

0

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

[ 232, 6924, 482, 84 ]

4

[ "Danio rerio" ]

[ 1 ]

1

true

Family

Uncharacterised peroxidase-related

Uncharacterised_peroxidase-rel

8

IPR010196

10,196

o-Succinylbenzoate synthase, MenC type1

OSB_synthase_MenC1

Family

5,877

false

This entry describes the enzyme o-succinylbenzoic acid synthetase (MenC) that is involved in one of the steps of the menaquinone biosynthesis pathway. The biosynthesis of menaquinone has been studied most in Escherichia coli [ ]. 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) is dehydrated by MenC to giv...

[ "GO:0000287", "GO:0016836", "GO:0009234" ]

[ "magnesium ion binding", "hydro-lyase activity", "menaquinone biosynthetic process" ]

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

3

[ "HAMAP" ]

[ "MF_00470" ]

[ "MenC_1" ]

[ 5877 ]

1

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

[ "4.2.1.113", "GenProp0058", "PWY-5837" ]

[ "EC:4.2.1.113", "GP:GenProp0058", "METACYC:PWY-5837" ]

3

[ "1fhu", "1fhv", "1r6w", "2ofj", "2opj", "2ozt", "2qvh", "3gc2", "3h7v" ]

9

[ "PUB00013780", "PUB00013809", "PUB00024892", "PUB00027810" ]

[ "10194342", "11153266", "10978150", "8335646" ]

[ "Unexpected divergence of enzyme function and sequence: \"N-acylamino acid racemase\" is o-succinylbenzoate synthase.", "Biosynthesis of menaquinone (vitamin K2) and ubiquinone (coenzyme Q): a perspective on enzymatic mechanisms.", "Evolution of enzymatic activity in the enolase superfamily: structure of o-succ...

[ 1999, 2001, 2000, 1993 ]

4

[]

0

null

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

[ 5493, 29, 324, 31 ]

4

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

o-Succinylbenzoate synthase, MenC type1

OSB_synthase_MenC1

3

IPR010198

10,198

1,4-Dihydroxy-2-naphthoyl-CoA synthase, MenB

DHNA-CoA_synthase_MenB

Family

11,247

false

This entry represents an enzyme, naphthoate synthase , MenB or dihydroxynaphthoic acid synthetase, which is involved in the fifth step of the menaquinone biosynthesis pathway. Menaquinone (vitamin K2), is an essential quinone used in electron-transfer pathways serving as the major electron carrier during anaerobic grow...

[ "GO:0008935", "GO:0009234" ]

[ "1,4-dihydroxy-2-naphthoyl-CoA synthase activity", "menaquinone biosynthetic process" ]

[ "molecular_function", "biological_process" ]

2

[ "HAMAP", "NCBIFAM" ]

[ "MF_01934", "TIGR01929" ]

[ "MenB", "menB" ]

[ 11227, 10308 ]

2

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

[ "4.1.3.36", "GenProp0058", "GenProp1560", "PWY-5837" ]

[ "EC:4.1.3.36", "GP:GenProp0058", "GP:GenProp1560", "METACYC:PWY-5837" ]

4

[ "1q51", "1q52", "1rjm", "1rjn", "2iex", "2uzf", "3h02", "3t88", "3t89", "3t8a", "3t8b", "4els", "4elw", "4elx", "4eml", "4i42", "4i4z", "4i52", "4qii", "4qij", "6ojm" ]

21

[ "PUB00013809", "PUB00030125", "PUB00033363", "PUB00033364", "PUB00033365", "PUB00033366" ]

[ "11153266", "12909628", "500558", "6780515", "1629162", "16131752" ]

[ "Biosynthesis of menaquinone (vitamin K2) and ubiquinone (coenzyme Q): a perspective on enzymatic mechanisms.", "Crystal structure of Mycobacterium tuberculosis MenB, a key enzyme in vitamin K2 biosynthesis.", "Menaquinone (vitamin K2) biosynthesis: conversion of o-succinylbenzoic acid to 1,4-dihydroxy-2-naphth...

[ 2001, 2003, 1979, 1981, 1992, 2005 ]

6

[]

0

null

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

[ 10037, 637, 332, 241 ]

4

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

[ 4, 1, 2, 6 ]

4

true

Family

1,4-Dihydroxy-2-naphthoyl-CoA synthase, MenB

DHNA-CoA_synthase_MenB

1

IPR010199

10,199

Sulphite reductase [NADPH] flavoprotein, alpha chain

CysJ

Family

5,109

false

Escherichia coli NADPH-sulphite reductase (SiR) is a multimeric hemoflavoprotein composed of eight alpha-subunits (SiR-FP) and four beta-subunits (SiR-HP) that catalyses the six electron reduction of sulphite to sulphide. This is one of several activities required for the biosynthesis of L-cysteine from sulphate. The a...

[ "GO:0004783", "GO:0010181", "GO:0050660", "GO:0019344" ]

[ "sulfite reductase (NADPH) activity", "FMN binding", "flavin adenine dinucleotide binding", "L-cysteine biosynthetic process" ]

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

4

[ "PIRSF", "NCBIFAM" ]

[ "PIRSF000207", "TIGR01931" ]

[ "SiR-FP_CysJ", "cysJ" ]

[ 4997, 4516 ]

2

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

[ "1.8.1.2", "GenProp1283", "GenProp1301", "PWY-6683" ]

[ "EC:1.8.1.2", "GP:GenProp1283", "GP:GenProp1301", "METACYC:PWY-6683" ]

4

[ "6efv", "9c91" ]

2

[ "PUB00014351", "PUB00014352" ]

[ "10984484", "10860732" ]

[ "A simplifed functional version of the Escherichia coli sulfite reductase.", "Four crystal structures of the 60 kDa flavoprotein monomer of the sulfite reductase indicate a disordered flavodoxin-like module." ]

[ 2000, 2000 ]

2

[]

[ "IPR029758" ]

0

1

0

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

[ 5100, 2, 7 ]

3

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Sulphite reductase [NADPH] flavoprotein, alpha chain

CysJ

6

IPR010201

10,201

HflK

Family

11,966

false

The accumulation of abnormal membrane proteins is something which must be avoided in order to maintain cell viability. In Escherichia coli, the membrane-bound, ATP-dependent protease FtsH plays a central role in the degradation of these abnormal proteins [ ]. Known substrates of this protease include several lambda bac...

[ "GO:0016020" ]

[ "membrane" ]

[ "cellular_component" ]

1

[ "NCBIFAM", "CDD" ]

[ "TIGR01933", "cd03404" ]

[ "hflK", "SPFH_HflK" ]

[ 10311, 11961 ]

2

[ "GP" ]

[ "GenProp0684" ]

[ "GP:GenProp0684" ]

1

[ "7vhp", "7vhq", "7wi3", "9cz1", "9cz2" ]

5

[ "PUB00033396", "PUB00081322" ]

[ "15910274", "20430064" ]

[ "Cellular functions, mechanism of action, and regulation of FtsH protease.", "Peptidase inhibitors in the MEROPS database." ]

[ 2005, 2010 ]

2

[]

0

null

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

[ 11696, 41, 229 ]

3

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

HflK

3

IPR010203

10,203

Regulator of ribonuclease activity A

RraA

Family

9,101

false

The regulator of ribonuclease activity A (RraA) family includes a number of closely related sequences from bacteria and plants. The Escherichia coli member has been characterised, and its crystal structure determined [ ]. It acts as a regulator of the endonuclease RNase E [ ] (see ) by binding to it and inhibiting RNA ...

[ "GO:0008428", "GO:0051252" ]

[ "ribonuclease inhibitor activity", "regulation of RNA metabolic process" ]

[ "molecular_function", "biological_process" ]

2

[ "NCBIFAM" ]

[ "TIGR01935" ]

[ "NOT-MenG" ]

[ 9101 ]

1

[]

0

[ "1j3l", "1nxj", "1q5x", "1vi4", "2pcn", "2yjt", "2yjv", "3c8o" ]

8

[ "PUB00017729", "PUB00017730" ]

[ "13678585", "14499605" ]

[ "RraA. a protein inhibitor of RNase E activity that globally modulates RNA abundance in E. coli.", "The X-ray structure of Escherichia coli RraA (MenG), A protein inhibitor of RNA processing." ]

[ 2003, 2003 ]

2

[ "IPR005493" ]

[ "IPR014339" ]

1

0

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

[ 7632, 1433, 36 ]

3

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

[ 9, 1, 7, 5 ]

4

true

Family

Regulator of ribonuclease activity A

RraA

6

IPR010204

10,204

Na(+)-translocating NADH-quinone reductase subunit C

NqrC

Family

4,720

false

This entry represents the NqrC subunit of the six-protein, Na(+)-pumping NADH-quinone reductase of a number of marine and pathogenic Gram-negative bacteria.

[ "GO:0010181", "GO:0016655", "GO:0006814", "GO:0016020" ]

[ "FMN binding", "oxidoreductase activity, acting on NAD(P)H, quinone or similar compound as acceptor", "sodium ion transport", "membrane" ]

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

4

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

[ "MF_00427", "PIRSF009437", "PTHR37838", "TIGR01938" ]

[ "NqrC", "NQR-1_subunit_C", "", "nqrC" ]

[ 4429, 3862, 4715, 4320 ]

4

[ "EC", "GP" ]

[ "7.2.1.1", "GenProp0129" ]

[ "EC:7.2.1.1", "GP:GenProp0129" ]

2

[ "3lwx", "4u9s", "4xa7", "4xhf", "7xk3", "7xk4", "7xk5", "7xk6", "7xk7", "8a1t", "8a1u", "8a1v", "8a1w", "8a1x", "8a1y", "8acw", "8acy", "8ad0", "8evu", "8ew3", "9lrr", "9u5g", "9ud2", "9ud3", "9ud4", "9ud5", "9ud6", "9ud8", "9ud9", "9uda", "9udf", "9udg"...

33

[ "PUB00005074", "PUB00043561", "PUB00045437" ]

[ "1470679", "10940377", "18394423" ]

[ "The NADH:ubiquinone oxidoreductase (complex I) of respiratory chains.", "The respiratory complex I of bacteria, archaea and eukarya and its module common with membrane-bound multisubunit hydrogenases.", "Assembly of the Escherichia coli NADH:ubiquinone oxidoreductase (complex I)." ]

[ 1992, 2000, 2008 ]

3

[]

0

null

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

[ 4617, 7, 96 ]

3

[]

0

true

Family

Na(+)-translocating NADH-quinone reductase subunit C

NqrC

6

IPR010205

10,205

Na(+)-translocating NADH-quinone reductase subunit F

NqrF

Family

4,416

false

This entry represents the Na(+)-translocating E subunit from NADH:ubiquinone oxidoreductase from a number of marine and pathogenic Gram-negative bacteria [ , ].

[ "GO:0016655", "GO:0051537", "GO:0006814", "GO:0016020" ]

[ "oxidoreductase activity, acting on NAD(P)H, quinone or similar compound as acceptor", "2 iron, 2 sulfur cluster binding", "sodium ion transport", "membrane" ]

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

4

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

[ "MF_00430", "PIRSF000044", "TIGR01941" ]

[ "NqrF", "Cis_Diol_DH_RD", "nqrF" ]

[ 4153, 3978, 4416 ]

3

[ "EC", "GP" ]

[ "7.2.1.1", "GenProp0129" ]

[ "EC:7.2.1.1", "GP:GenProp0129" ]

2

[ "2r6h", "4u9u", "4uaj", "7qty", "7qu0", "7qu3", "7qu5", "7xk3", "7xk4", "7xk5", "7xk6", "7xk7", "8a1t", "8a1u", "8a1v", "8a1w", "8a1x", "8a1y", "8acw", "8acy", "8ad0", "8ad3", "8ad4", "8ad5", "8evu", "8ew3", "9lrr", "9u5g", "9ud2", "9ud3", "9ud4", "9ud5"...

39

[ "PUB00005074", "PUB00013512", "PUB00043561", "PUB00045437", "PUB00073559" ]

[ "1470679", "11248187", "10940377", "18394423", "15010474" ]

[ "The NADH:ubiquinone oxidoreductase (complex I) of respiratory chains.", "Recent progress in the Na(+)-translocating NADH-quinone reductase from the marine Vibrio alginolyticus.", "The respiratory complex I of bacteria, archaea and eukarya and its module common with membrane-bound multisubunit hydrogenases.", ...

[ 1992, 2001, 2000, 2008, 2004 ]

5

[]

0

null

[ "Bacteria", "Eukaryota", "candidate division MSBL1 archaeon SCGC-AAA382M17", "metagenomes" ]

[ 4344, 12, 1, 59 ]

4

[]

0

true

Family

Na(+)-translocating NADH-quinone reductase subunit F

NqrF

6

IPR010206

10,206

Poly(A) polymerase I

PolA_pol_I

Family

7,115

false

This entry describes poly(A) polymerase I (also known as PcnB and plasmid copy number protein). These enzymes sequentially add adenosine nucleotides to the 3' end of RNAs, targeting them for degradation by the cell [ , ]. This was originally described for anti-sense RNAs, but was later demonstrated for mRNAs as well [ ...

[ "GO:0003723", "GO:1990817", "GO:0043633" ]

[ "RNA binding", "poly(A) RNA polymerase activity", "polyadenylation-dependent RNA catabolic process" ]

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

3

[ "HAMAP", "NCBIFAM" ]

[ "MF_00957", "TIGR01942" ]

[ "PolyA_pol", "pcnB" ]

[ 6916, 7100 ]

2

[ "EC" ]

[ "2.7.7.19" ]

[ "EC:2.7.7.19" ]

1

[ "3aqk", "3aql", "3aqm", "3aqn" ]

4

[ "PUB00013755", "PUB00013805", "PUB00013821" ]

[ "7523833", "7534403", "7688127" ]

[ "PcnB is required for the rapid degradation of RNAI, the antisense RNA that controls the copy number of ColE1-related plasmids.", "Polyadenylylation helps regulate mRNA decay in Escherichia coli.", "The Escherichia coli pcnB gene promotes adenylylation of antisense RNAI of ColE1-type plasmids in vivo and degrad...

[ 1993, 1995, 1993 ]

3

[]

0

null

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

[ 7025, 9, 81 ]

3

[ "Escherichia coli (strain K12)", "Oryza sativa subsp. japonica" ]

[ 1, 1 ]

2

true

Family

Poly(A) polymerase I

PolA_pol_I

4

IPR010207

10,207

Ion-translocating oxidoreductase complex, RnfB/RsxB

Elect_transpt_cplx_RnfB/RsxB

Family

9,451

false

The six subunit complex RnfABCDGE in Rhodobacter capsulatus (Rhodopseudomonas capsulata) encodes an apparent NADH oxidoreductase responsible for electron transport to nitrogenase, necessary for nitrogen fixation [ , , ]. A closely related complex in Escherichia coli, RsxABCDGE (Reducer of SoxR), reduces the 2Fe-2S-cont...

[ "GO:0009055", "GO:0051536" ]

[ "electron transfer activity", "iron-sulfur cluster binding" ]

[ "molecular_function", "molecular_function" ]

2

[ "HAMAP", "NCBIFAM" ]

[ "MF_00463", "TIGR01944" ]

[ "RsxB_RnfB", "rnfB" ]

[ 6125, 8628 ]

2

[ "GP" ]

[ "GenProp0130" ]

[ "GP:GenProp0130" ]

1

[ "7zc6", "8ahx", "8rb8", "8rb9", "8rbm", "8rbq", "9eri", "9erj", "9erk", "9erl" ]

10

[ "PUB00007528", "PUB00013513", "PUB00020279", "PUB00062387" ]

[ "9154934", "12773378", "8264535", "10671439" ]

[ "Membrane localization, topology, and mutual stabilization of the rnfABC gene products in Rhodobacter capsulatus and implications for a new family of energy-coupling NADH oxidoreductases.", "A reducing system of the superoxide sensor SoxR in Escherichia coli.", "Identification of a new class of nitrogen fixatio...

[ 1997, 2003, 1993, 2000 ]

4

[]

[ "IPR016463", "IPR049679" ]

0

2

0

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

[ 9253, 9, 42, 147 ]

4

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Ion-translocating oxidoreductase complex, RnfB/RsxB

Elect_transpt_cplx_RnfB/RsxB

5

IPR010208

10,208

Ion-translocating oxidoreductase complex, subunit RnfC/RsxC

Ion_transpt_RnfC/RsxC

Family

11,139

false

The six subunit complex RnfABCDGE in Rhodobacter capsulatus (Rhodopseudomonas capsulata) encodes an apparent NADH oxidoreductase responsible for electron transport to nitrogenase, necessary for nitrogen fixation [ , , ]. A closely related complex in Escherichia coli, RsxABCDGE (Reducer of SoxR), reduces the 2Fe-2S-cont...

[ "GO:0009055", "GO:0051539", "GO:0016020" ]

[ "electron transfer activity", "4 iron, 4 sulfur cluster binding", "membrane" ]

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

3

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

[ "MF_00461", "PTHR43034", "TIGR01945" ]

[ "RsxC_RnfC", "", "rnfC" ]

[ 8160, 11139, 8129 ]

3

[ "GP" ]

[ "GenProp0130" ]

[ "GP:GenProp0130" ]

1

[ "7zc6", "8ahx", "8rb8", "8rb9", "8rbm", "8rbq", "9eri", "9erj", "9erk", "9erl" ]

10

[ "PUB00008135", "PUB00013513", "PUB00020279", "PUB00062387" ]

[ "9492268", "12773378", "8264535", "10671439" ]

[ "Overexpression in Escherichia coli of the rnf genes from Rhodobacter capsulatus--characterization of two membrane-bound iron-sulfur proteins.", "A reducing system of the superoxide sensor SoxR in Escherichia coli.", "Identification of a new class of nitrogen fixation genes in Rhodobacter capsulatus: a putative...

[ 1998, 2003, 1993, 2000 ]

4

[]

[ "IPR049684" ]

0

1

0

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

[ 10791, 99, 9, 240 ]

4

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Ion-translocating oxidoreductase complex, subunit RnfC/RsxC

Ion_transpt_RnfC/RsxC

9