LiteFold/InterPro · Datasets at Hugging Face

IPR017491

17,491

Photosystem I protein PsaC

PSI_PsaC

Family

13,888

false

Members of this family are PsaC, an essential component of photosystem I (PS-I) reaction centre in Cyanobacteria and chloroplasts. This small protein, about 80 amino acids in length, contains two copies of the ferredoxin-like 4Fe-4S binding site and therefore eight conserved Cys residues. This protein is also called ph...

[ "GO:0009055", "GO:0051539", "GO:0009773", "GO:0015979", "GO:0009522", "GO:0042651" ]

[ "electron transfer activity", "4 iron, 4 sulfur cluster binding", "photosynthetic electron transport in photosystem I", "photosynthesis", "photosystem I", "thylakoid membrane" ]

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

6

[ "HAMAP", "NCBIFAM" ]

[ "MF_01303", "TIGR03048" ]

[ "PSI_PsaC", "PS_I_psaC" ]

[ 13671, 13887 ]

2

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

[ "1.97.1.12", "GenProp0660", "GenProp1353", "PWY-101", "PWY-8270" ]

[ "EC:1.97.1.12", "GP:GenProp0660", "GP:GenProp1353", "METACYC:PWY-101", "METACYC:PWY-8270" ]

5

[ "1jb0", "1k0t", "2o01", "2wsc", "2wse", "2wsf", "3lw5", "3pcq", "4fe1", "4kt0", "4l6v", "4rku", "4xk8", "4y28", "5l8r", "5oy0", "5zf0", "5zgb", "5zgh", "5zji", "6fos", "6hqb", "6igz", "6ijj", "6ijo", "6jeo", "6jo5", "6jo6", "6k33", "6k61", "6kif", "6kig"...

147

[]

0

[]

0

null

[ "Bacteria", "Eukaryota", "Viruses" ]

[ 373, 13510, 5 ]

3

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

[ 3, 3, 2 ]

3

true

Family

Photosystem I protein PsaC

PSI_PsaC

4

IPR017492

17,492

Photosystem I reaction center subunit PsaK

PSI_PsaK

Family

886

false

Photosystem I (PSI) [ ] is an integral membrane protein complex that uses light energy to mediate electron transfer from plastocyanin to ferredoxin. It is found in the chloroplasts of plants and cyanobacteria. PSI is composed of at least 14 different subunits, two of which are small hydrophobic proteins of about 7 to 9...

[ "GO:0015979", "GO:0009522", "GO:0042651" ]

[ "photosynthesis", "photosystem I", "thylakoid membrane" ]

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

3

[ "HAMAP", "NCBIFAM" ]

[ "MF_00474", "TIGR03049" ]

[ "PSI_PsaK", "PS_I_psaK" ]

[ 713, 883 ]

2

[ "GP" ]

[ "GenProp0660" ]

[ "GP:GenProp0660" ]

1

[ "1jb0", "3pcq", "4fe1", "4kt0", "4l6v", "5oy0", "5zf0", "6hqb", "6jeo", "6k33", "6k61", "6kif", "6kig", "6kmx", "6nwa", "6pfy", "6pgk", "6tcl", "6tra", "6trc", "6trd", "6uzv", "6vpv", "7bw2", "7coy", "7fix", "7m75", "7m76", "7m78", "7o1v", "7qco", "7s3d"...

50

[ "PUB00000583", "PUB00002802", "PUB00100153" ]

[ "3333014", "8360180", "11687207" ]

[ "Structure, function and organization of the Photosystem I reaction center complex.", "The PSI-K subunit of photosystem I from barley (Hordeum vulgare L.). Evidence for a gene duplication of an ancestral PSI-G/K gene.", "Role of subunits in eukaryotic Photosystem I." ]

[ 1987, 1993, 2001 ]

3

[ "IPR000549" ]

[]

1

0

1

[ "Cyanobacteriota", "Eukaryota", "Viruses" ]

[ 649, 233, 4 ]

3

[]

0

true

Family

Photosystem I reaction center subunit PsaK

PSI_PsaK

1

IPR017493

17,493

Photosystem I reaction center subunit psaK, plant

PSI_PsaK_pln

Family

625

false

Photosystem I (PSI) [ ] is an integral membrane protein complex that uses light energy to mediate electron transfer from plastocyanin to ferredoxin. It is found in the chloroplasts of plants and cyanobacteria. PSI is composed of at least 14 different subunits, two of which are small hydrophobic proteins of about 7 to 9...

[]

0

[ "NCBIFAM" ]

[ "TIGR03050" ]

[ "PS_I_psaK_plant" ]

[ 625 ]

1

[]

0

[ "2wsc", "2wse", "2wsf", "3lw5", "4rku", "4xk8", "4y28", "5l8r", "5zji", "6igz", "6ijj", "6ijo", "6jo5", "6jo6", "6l35", "6yac", "6yez", "6zoo", "6zxs", "6zzx", "6zzy", "7a4p", "7bgi", "7blx", "7d0j", "7dkz", "7dz7", "7dz8", "7ew6", "7ewk", "7f9o", "7ksq"...

59

[ "PUB00000583", "PUB00002802", "PUB00100152", "PUB00100153" ]

[ "3333014", "8360180", "28248295", "11687207" ]

[ "Structure, function and organization of the Photosystem I reaction center complex.", "The PSI-K subunit of photosystem I from barley (Hordeum vulgare L.). Evidence for a gene duplication of an ancestral PSI-G/K gene.", "Structure of the plant photosystem I supercomplex at 2.6 A resolution.", "Role of subunit...

[ 1987, 1993, 2017, 2001 ]

4

[ "IPR016370" ]

[]

1

0

1

[ "Staphylococcus warneri", "Viridiplantae" ]

[ 1, 624 ]

2

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

[ 5, 2, 3 ]

3

true

Family

Photosystem I reaction center subunit psaK, plant

PSI_PsaK_pln

9

IPR017494

17,494

Photosystem I reaction center subunit V

PSI_PsaG

Family

563

false

Photosystem I (PSI) [ ] is an integral membrane protein complex that uses light energy to mediate electron transfer from plastocyanin to ferredoxin. It is found in the chloroplasts of plants and cyanobacteria. PSI is composed of at least 14 different subunits, two of which are small hydrophobic proteins of about 7 to 9...

[ "GO:0015979", "GO:0009522", "GO:0009535" ]

[ "photosynthesis", "photosystem I", "chloroplast thylakoid membrane" ]

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

3

[ "NCBIFAM" ]

[ "TIGR03051" ]

[ "PS_I_psaG_plant" ]

[ 563 ]

1

[]

0

[ "2o01", "2wsc", "2wse", "2wsf", "3lw5", "4xk8", "4y28", "5l8r", "5zji", "6igz", "6ijo", "6jo5", "6jo6", "6l35", "6yac", "6yez", "6zoo", "6zxs", "6zzx", "6zzy", "7a4p", "7bgi", "7blx", "7d0j", "7dkz", "7dz7", "7dz8", "7ksq", "7kux", "7o01", "7r3k", "7wfd"...

53

[ "PUB00000583", "PUB00002802", "PUB00100150", "PUB00100151", "PUB00100152", "PUB00100153" ]

[ "3333014", "8360180", "16478728", "15953472", "28248295", "11687207" ]

[ "Structure, function and organization of the Photosystem I reaction center complex.", "The PSI-K subunit of photosystem I from barley (Hordeum vulgare L.). Evidence for a gene duplication of an ancestral PSI-G/K gene.", "The properties of the positively charged loop region in PSI-G are essential for its \"spont...

[ 1987, 1993, 2006, 2005, 2017, 2001 ]

6

[ "IPR016370" ]

[]

1

0

1

[ "Bacteria", "Viridiplantae" ]

[ 3, 560 ]

2

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

[ 4, 3, 3 ]

3

true

Family

Photosystem I reaction center subunit V

PSI_PsaG

2

IPR017495

17,495

Photosynthetic complex assembly protein PuhC

PuhC

Family

641

false

PuhC regularly is found encoded near PuhA, which encodes a component of the photosynthetic reaction centre, among other genes associated with photosynthesis [ , ]. Members of this entry are predominantly found in alpha- and betaproteobacteria.

[]

0

[ "PFAM", "NCBIFAM" ]

[ "PF27124", "TIGR03054" ]

[ "PuhC", "photo_alph_chp1" ]

[ 640, 639 ]

2

[ "GP" ]

[ "GenProp0662" ]

[ "GP:GenProp0662" ]

1

[]

0

[ "PUB00106049", "PUB00106724" ]

[ "29795276", "16949540" ]

[ "Horizontal operon transfer, plasmids, and the evolution of photosynthesis in Rhodobacteraceae.", "The photosynthetic deficiency due to puhC gene deletion in Rhodobacter capsulatus suggests a PuhC protein-dependent process of RC/LH1/PufX complex reorganization." ]

[ 2018, 2006 ]

2

[]

0

null

[ "Pseudomonadati", "Symbiodinium necroappetens", "freshwater sediment metagenome" ]

[ 639, 1, 1 ]

3

[]

0

true

Family

Photosynthetic complex assembly protein PuhC

PuhC

1

IPR017496

17,496

Photosynthetic complex assembly protein 2, putative

Photo_alph_chp2

Family

661

false

This uncharacterised protein family was identified, by the method of partial phylogenetic profiling, as having a matching phylogenetic distribution to that of the photosynthetic reaction centre of the alpha-proteobacterial type. It is nearly always encoded near other photosynthesis-related genes, including puhA.

[]

0

[ "PFAM", "NCBIFAM" ]

[ "PF12291", "TIGR03055" ]

[ "DUF3623", "photo_alph_chp2" ]

[ 661, 640 ]

2

[ "GP" ]

[ "GenProp0662" ]

[ "GP:GenProp0662" ]

1

[]

0

[]

0

[]

0

null

[ "Bacteria", "Eukaryota", "freshwater sediment metagenome" ]

[ 658, 2, 1 ]

3

[]

0

true

Family

Photosynthetic complex assembly protein 2, putative

Photo_alph_chp2

4

IPR017497

17,497

Magnesium-chelatase 30 kDa subunit

BchO

Family

650

false

This family represents a group of proteins found in bacteria that encode anoxygenic photosynthetic systems similar to that found in Rhodobacter capsulatus (Rhodopseudomonas capsulata), including Magnesium-chelatase 30 kDa subunit (BchO). Members of this entry belong to the α/β fold family of hydrolases. Co-occurrence w...

[]

0

[ "NCBIFAM" ]

[ "TIGR03056" ]

[ "bchO_mg_che_rel" ]

[ 650 ]

1

[]

0

[ "4psu" ]

1

[ "PUB00153577" ]

[ "27087107" ]

[ "Biochemical and Structural Insights into Enzymatic Depolymerization of Polylactic Acid and Other Polyesters by Microbial Carboxylesterases." ]

[ 2016 ]

1

[]

0

null

[ "Bacteria", "Symbiodinium necroappetens", "freshwater sediment metagenome" ]

[ 648, 1, 1 ]

3

[]

0

true

Family

Magnesium-chelatase 30 kDa subunit

BchO

6

IPR017498

17,498

Photosystem I PsaO

PSI_PsaO

Family

697

false

Members of this family are the PsaO protein of photosystem I. This protein is found in chloroplasts but not in Cyanobacteria.

[]

0

[ "PFAM", "PANTHER", "NCBIFAM" ]

[ "PF22832", "PTHR36311", "TIGR03059" ]

[ "PsaO_TMD", "", "psaOeuk" ]

[ 696, 685, 566 ]

3

[ "GP" ]

[ "GenProp1353" ]

[ "GP:GenProp1353" ]

1

[ "5zgb", "5zgh", "5zji", "6fos", "6sl5", "6zzx", "7blz", "7d0j", "7dz7", "7dz8", "7ksq", "7ku5", "7xqp", "7y5e", "7y7a", "7y7b", "7y8a", "7yca", "8htu", "8j6z", "8wey", "8wgh", "8wm6", "8wmv", "8wmw", "9kc5", "9kqp", "9mgw" ]

28

[ "PUB00154183" ]

[ "36951548" ]

[ "The photosystem I supercomplex from a primordial green alga <i>Ostreococcus tauri</i> harbors three light-harvesting complex trimers." ]

[ 2023 ]

1

[]

0

null

[ "Eukaryota", "Staphylococcus warneri" ]

[ 695, 2 ]

2

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

[ 3, 2, 4 ]

3

true

Family

Photosystem I PsaO

PSI_PsaO

6

IPR017499

17,499

Protein Thf1

Thf1

Family

1,326

false

Thf1 protein (also known as Psb29) is found in Cyanobacteria and in the plastids of vascular plants. They may function in the biogenesis of Photosystem II complexes [ ]. In Synechocystis it was isolated and partially sequenced from purified photosystem II (PS II). Deletion of psb29 in Synechocystis 6803 results in slow...

[ "GO:0010207", "GO:0015979" ]

[ "photosystem II assembly", "photosynthesis" ]

[ "biological_process", "biological_process" ]

2

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

[ "MF_01843", "PF11264", "PTHR34793", "TIGR03060" ]

[ "Thf1", "ThylakoidFormat", "", "PS_II_psb29" ]

[ 887, 1324, 1309, 952 ]

4

[ "GP" ]

[ "GenProp0661" ]

[ "GP:GenProp0661" ]

1

[ "5mjo", "5mjr", "5mjw", "5mlf" ]

4

[ "PUB00043043", "PUB00074081", "PUB00074082" ]

[ "16155179", "16582010", "15516501" ]

[ "Psb29, a conserved 22-kD protein, functions in the biogenesis of Photosystem II complexes in Synechocystis and Arabidopsis.", "The plastid protein THYLAKOID FORMATION1 and the plasma membrane G-protein GPA1 interact in a novel sugar-signaling mechanism in Arabidopsis.", "Deletion of the chloroplast-localized T...

[ 2005, 2006, 2004 ]

3

[]

0

null

[ "Chlorovirus", "Cyanobacteriota", "Eukaryota" ]

[ 4, 367, 955 ]

3

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

[ 2, 2, 13 ]

3

true

Family

Protein Thf1

Thf1

9

IPR017500

17,500

Phage infection protein, YhgE, N-terminal

Phage_infect_YhgE_N

Domain

11,375

false

This entry represents the N-terminal domain of a family of multiple membrane-spanning proteins from Gram-positive bacteria. One member was shown to be a host protein essential for phage infection, so many members of this family are called "phage infection protein". A separate entry, , represents the conserved C-termina...

[]

0

[ "NCBIFAM" ]

[ "TIGR03061" ]

[ "pip_yhgE_Nterm" ]

[ 11375 ]

1

[]

0

[]

0

[]

0

[]

0

null

[ "Bacteria", "Enterococcus phage Entfac.YE1", "Eukaryota", "Methanobacteriaceae", "metagenomes" ]

[ 11312, 1, 8, 47, 7 ]

5

[]

0

true

Domain

Phage infection protein, YhgE, N-terminal

Phage_infect_YhgE_N

7

IPR017501

17,501

Phage infection protein, YhgE, C-terminal

Phage_infect_YhgE_C

Domain

10,586

false

This entry contains proteins that have the C-terminal domain of a family of multiple membrane-spanning proteins of Gram-positive bacteria. One member was shown to be a host protein essential for phage infection, so many members of this family are called "phage infection protein". A separate model, , represents the cons...

[]

0

[ "NCBIFAM" ]

[ "TIGR03062" ]

[ "pip_yhgE_Cterm" ]

[ 10586 ]

1

[]

0

[]

0

[]

0

[]

0

null

[ "Bacteria", "Enterococcus phage Entfac.YE1", "Methanobacteriaceae", "Opisthokonta", "metagenomes" ]

[ 10518, 1, 50, 6, 11 ]

5

[]

0

true

Domain

Phage infection protein, YhgE, C-terminal

Phage_infect_YhgE_C

3

IPR017502

17,502

Sortase B cell surface sorting signal

Sortase_SrtB_target

Domain

870

false

Two different classes of sorting signal, both analogous to the sortase A signal LPXTG, can be recognised by the sortase, SrtB. These are given as NXZTN and NPKXZ. Proteins sorted by this class of sortase are less common than the sortase A and LPXTG system. This entry describes a number of cell surface proteins regions ...

[]

0

[ "NCBIFAM" ]

[ "TIGR03063" ]

[ "srtB_target" ]

[ 870 ]

1

[ "GP" ]

[ "GenProp0664" ]

[ "GP:GenProp0664" ]

1

[]

0

[]

0

[]

0

null

[ "Bacteria", "Opisthokonta", "Siphoviridae sp. ctOOe6", "marine metagenome" ]

[ 866, 2, 1, 1 ]

4

[]

0

true

Domain

Sortase B cell surface sorting signal

Sortase_SrtB_target

6

IPR017503

17,503

Sortase B signal domain, QVPTGV class

Sortase_SrtB_sig_QVPTGV

Domain

66

false

This entry represents an unusual sorting signal, recognised by a member of the sortase SrtB family rather than by the housekeeping sortase, SrtA.

[]

0

[ "NCBIFAM" ]

[ "TIGR03065" ]

[ "srtB_sig_QVPTGV" ]

[ 66 ]

1

[ "GP" ]

[ "GenProp0664" ]

[ "GP:GenProp0664" ]

1

[]

0

[]

0

[]

0

null

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

[ 4, 60, 2 ]

3

[]

0

true

Domain

Sortase B signal domain, QVPTGV class

Sortase_SrtB_sig_QVPTGV

2

IPR017504

17,504

Conserved hypothetical protein CHP03067, planctomycetes

CHP03067_Planctomycetes

Domain

580

false

This domain occurs in several species, mostly from the Planctomycetes division of the bacteria. It has expanded into a paralogous family of at least twenty-five members in Gemmata obscuriglobus UQM 2246. This family appears related to , which has also expanded into a large paralogous family in G. obscuriglobus.

[]

0

[ "NCBIFAM" ]

[ "TIGR03067" ]

[ "Planc_TIGR03067" ]

[ 580 ]

1

[]

0

[]

0

[]

0

[]

0

null

[ "Bacteria", "Durusdinium trenchii", "unclassified sequences" ]

[ 576, 1, 3 ]

3

[]

0

true

Domain

Conserved hypothetical protein CHP03067, planctomycetes

CHP03067_Planctomycetes

5

IPR017506

17,506

Photosystem II S4

PSII_S4

Family

963

false

Members of this protein family are about 265 residues long and each contains an S4 RNA-binding domain of about 48 residues. The member from the Cyanobacterium, Synechocystis sp. (strain PCC 6803), was detected as a novel polypeptide in a highly purified preparation of active photosystem II [ ]. The phylogenetic distrib...

[]

0

[ "NCBIFAM" ]

[ "TIGR03069" ]

[ "PS_II_S4" ]

[ 963 ]

1

[ "GP" ]

[ "GenProp0661" ]

[ "GP:GenProp0661" ]

1

[]

0

[ "PUB00042838" ]

[ "12461137" ]

[ "Low-molecular-mass polypeptide components of a photosystem II preparation from the thermophilic cyanobacterium Thermosynechococcus vulcanus." ]

[ 2002 ]

1

[]

0

null

[ "Bacillati", "Eukaryota" ]

[ 369, 594 ]

2

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

[ 4, 3, 5 ]

3

true

Family

Photosystem II S4

PSII_S4

8

IPR017507

17,507

Transcription regulator, HipB-like

Tscrpt_reg_HipB-like

Family

1,249

false

Members of this family belong to a clade of helix-turn-helix DNA-binding proteins. Members are similar in sequence to the HipB protein of Escherichia coli. Genes for members of the seed alignment for this protein family were found to be closely linked to genes encoding proteins related to HipA. The HibBA operon appears...

[]

0

[ "NCBIFAM" ]

[ "TIGR03070" ]

[ "couple_hipB" ]

[ 1249 ]

1

[]

0

[ "8ezt" ]

1

[]

0

[]

0

null

[ "Bacteria", "Methanosarcinaceae", "metagenomes" ]

[ 1227, 4, 18 ]

3

[]

0

true

Family

Transcription regulator, HipB-like

Tscrpt_reg_HipB-like

4

IPR017508

17,508

HipA, N-terminal subdomain 1

HipA_N1

Domain

13,236

false

HipA is a bacterial serine/threonine protein kinase involved in multidrug tolerance. In HipA, a P loop motif forms a central strand that disrupts the N-terminal β-sheet region, leading to the creation of two N-subdomains [ ]. This entry represents subdomain 1, and hits the N-terminal region of HipA and its homologues.

[]

0

[ "PFAM", "NCBIFAM" ]

[ "PF13657", "TIGR03071" ]

[ "Couple_hipA", "couple_hipA" ]

[ 13232, 8093 ]

2

[ "GP" ]

[ "GenProp1120" ]

[ "GP:GenProp1120" ]

1

[ "2wiu", "3dnt", "3dnu", "3dnv", "3fbr", "3hzi", "3tpb", "3tpd", "3tpe", "3tpt", "3tpv", "4pu3", "4pu4", "4pu5", "4yg7", "5k98", "7ab3", "7ab4", "7ab5", "7czo", "7vkb", "8ezr", "8ezs" ]

23

[ "PUB00062640" ]

[ "22999936" ]

[ "Role of Unusual P Loop Ejection and Autophosphorylation in HipA-Mediated Persistence and Multidrug Tolerance." ]

[ 2012 ]

1

[]

0

null

[ "Bacteria", "Eukaryota", "IncJ plasmid R391", "Methanosarcinaceae", "Siphoviridae sp. ctg0K17", "unclassified sequences" ]

[ 12968, 17, 1, 5, 1, 244 ]

6

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Domain

HipA, N-terminal subdomain 1

HipA_N1

4

IPR017509

17,509

Peptide chain release factor homolog

PrfH

Family

2,155

false

Members of this protein family are bacterial proteins homologous to peptide chain release factors 1 (RF-1, product of the prfA gene), and 2 (RF-2, product of the prfB gene). This class I release factor is always found as the downstream gene of a two-gene operon. PrfH acts on 70S ribosomes with specific damage to their ...

[]

0

[ "NCBIFAM" ]

[ "TIGR03072" ]

[ "release_prfH" ]

[ 2155 ]

1

[ "GP" ]

[ "GenProp0665" ]

[ "GP:GenProp0665" ]

1

[ "7sa4", "9mor", "9mq4" ]

3

[ "PUB00153404" ]

[ "35858322" ]

[ "Sequential rescue and repair of stalled and damaged ribosome by bacterial PrfH and RtcB." ]

[ 2022 ]

1

[]

0

null

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

[ 2146, 5, 3, 1 ]

4

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Peptide chain release factor homolog

PrfH

2

IPR017510

17,510

RNA-splicing ligase RtcB2

RtcB2

Family

1,990

false

This family includes RNA-splicing ligase RtcB2 from Escherichia coli and similar sequences mainly found in bacteria. RtcB2 is a GTP-dependent RNA ligase involved in rRNA repair that does not repair damaged tRNA. In vivo the PrfH( )-RtcB2 pair restores growth in the presence of ribotoxins that specifically create this d...

[]

0

[ "NCBIFAM" ]

[ "TIGR03073" ]

[ "release_rtcB" ]

[ 1990 ]

1

[ "GP" ]

[ "GenProp0665" ]

[ "GP:GenProp0665" ]

1

[]

0

[ "PUB00153404" ]

[ "35858322" ]

[ "Sequential rescue and repair of stalled and damaged ribosome by bacterial PrfH and RtcB." ]

[ 2022 ]

1

[ "IPR001233" ]

[]

1

0

1

[ "Bacteria", "Edafosvirus sp.", "Eukaryota", "ecological metagenomes" ]

[ 1872, 1, 113, 4 ]

4

[]

0

true

Family

RNA-splicing ligase RtcB2

RtcB2

3

IPR017512

17,512

PQQ-dependent dehydrogenase, methanol/ethanol family

PQQ_MeOH/EtOH_DH

Family

6,053

false

This entry represents PQQ-dependent dehydrogenases from the methanol/ethanol family, which has a phylogenetic distribution very similar to that coenzyme PQQ biosynthesis enzymes, as shown by partial phylogenetic profiling. Genes in this family often are found adjacent to the PQQ biosynthesis genes themselves. An unusua...

[ "GO:0005509", "GO:0016614", "GO:0016020" ]

[ "calcium ion binding", "oxidoreductase activity, acting on CH-OH group of donors", "membrane" ]

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

3

[ "NCBIFAM" ]

[ "TIGR03075" ]

[ "PQQ_enz_alc_DH" ]

[ 6053 ]

1

[ "GP", "GP" ]

[ "GenProp0170", "GenProp1101" ]

[ "GP:GenProp0170", "GP:GenProp1101" ]

2

[ "1flg", "1g72", "1h4i", "1h4j", "1kb0", "1kv9", "1lrw", "1w6s", "1yiq", "2ad6", "2ad7", "2ad8", "2d0v", "4aah", "4mae", "4tqo", "5xm3", "6dam", "6fkw", "6oc5", "6oc6", "6zcv", "6zcw", "7cdl", "7ce5", "7ce9", "7ced", "7cfx", "7o6z", "8gy2", "9ism", "9iso"...

32

[]

0

[]

[ "IPR034119" ]

0

1

0

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

[ 5964, 11, 78 ]

3

[]

0

true

Family

PQQ-dependent dehydrogenase, methanol/ethanol family

PQQ_MeOH/EtOH_DH

3

IPR017513

17,513

Conserved hypothetical protein CHP03076, glycine cleavage

CHP03076_Gly-cleavage

Family

32

false

The H protein (GcvH) of the glycine cleavage system shuttles the methylamine group of glycine from the P protein to the T protein. Most Chlamydia lack the P and T proteins, and have a single homologue of GcvH that appears deeply split from canonical GcvH in molecular phylogenetic trees. The proteins in this entry are o...

[]

0

[ "NCBIFAM" ]

[ "TIGR03076" ]

[ "near_not_gcvH" ]

[ 32 ]

1

[]

0

[]

0

[]

0

[ "IPR060763" ]

[]

1

0

1

[ "Chlamydia" ]

[ 32 ]

1

[]

0

true

Family

Conserved hypothetical protein CHP03076, glycine cleavage

CHP03076_Gly-cleavage

9

IPR017514

17,514

Glycine cleavage system protein H-related, Chlamydia

GcvH_Chlamydia

Family

28

false

The H protein (GcvH) of the glycine cleavage system shuttles the methylamine group of glycine from the P protein to the T protein. Most Chlamydia lack the P and T proteins, and have a single homologue of GcvH that appears deeply split from canonical GcvH in molecular phylogenetic trees. This protein family represents t...

[]

0

[ "NCBIFAM" ]

[ "TIGR03077" ]

[ "not_gcvH" ]

[ 28 ]

1

[]

0

[]

0

[]

0

[ "IPR002930" ]

[]

1

0

1

[ "Chlamydia" ]

[ 28 ]

1

[]

0

true

Family

Glycine cleavage system protein H-related, Chlamydia

GcvH_Chlamydia

7

IPR017515

17,515

Methylmalonyl-CoA epimerase

MeMalonyl-CoA_epimerase

Family

12,244

false

Members of this protein family are the enzyme methylmalonyl-CoA epimerase ( ), also called methylmalonyl-CoA racemase. This enzyme converts (2R)-methylmalonyl-CoA to (2S)-methylmalonyl-CoA, which is then a substrate for methylmalonyl-CoA mutase ( ). It is known in bacteria, archaea, and as a mitochondrial protein in an...

[]

0

[ "NCBIFAM", "CDD" ]

[ "TIGR03081", "cd07249" ]

[ "metmalonyl_epim", "MMCE" ]

[ 11532, 12196 ]

2

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

[ "5.1.99.1", "GenProp1439", "GenProp1629", "PWY-5741", "PWY-5743", "PWY-5789", "PWY-6728", "PWY-7384", "PWY-7854", "PWY-8086", "R-DDI-71032", "R-HSA-71032", "R-MMU-71032" ]

[ "EC:5.1.99.1", "GP:GenProp1439", "GP:GenProp1629", "METACYC:PWY-5741", "METACYC:PWY-5743", "METACYC:PWY-5789", "METACYC:PWY-6728", "METACYC:PWY-7384", "METACYC:PWY-7854", "METACYC:PWY-8086", "REACTOME:R-DDI-71032", "REACTOME:R-HSA-71032", "REACTOME:R-MMU-71032" ]

13

[ "1jc4", "1jc5", "2qh0", "3gm5", "3hdp", "3oa4", "3rmu", "6bu2", "6qh4", "6wf6", "6wf7", "6wfh", "6wfi", "6xbq", "6xbr", "6xbs", "6xbt", "6xbv" ]

18

[]

0

[]

0

null

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

[ 512, 10004, 1467, 261 ]

4

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

[ 1, 1, 1, 1, 5 ]

5

true

Family

Methylmalonyl-CoA epimerase

MeMalonyl-CoA_epimerase

2

IPR017516

17,516

AbrB duplication

AbrB_dup

Domain

8,168

false

The entry describes a hydrophobic sequence region that is duplicated to form the AbrB protein of Escherichia coli (not to be confused with a Bacillus subtilis protein with the same gene symbol). In some species, notably the Cyanobacteria and Thermus thermophilus, proteins consist of a single copy rather than two copies...

[]

0

[ "NCBIFAM" ]

[ "TIGR03082" ]

[ "Gneg_AbrB_dup" ]

[ 8168 ]

1

[]

0

[]

0

[ "PUB00019141", "PUB00019142" ]

[ "8002588", "9732537" ]

[ "Induction of the Escherichia coli aidB gene under oxygen-limiting conditions requires a functional rpoS (katF) gene.", "Physiological and molecular biological characterization of ammonia oxidation of the heterotrophic nitrifier Pseudomonas putida." ]

[ 1994, 1998 ]

2

[]

0

null

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

[ 8092, 11, 65 ]

3

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Domain

AbrB duplication

AbrB_dup

1

IPR017517

17,517

Maleylpyruvate isomerase, mycothiol-dependent enzyme

Maleyloyr_isom

Family

34,420

false

This protein family pulls together several groups of proteins, each very different from the others. They share in common three conserved regions. The first is a region of about 38 amino acids, nearly always at the N terminus of a protein. This region has a bulky hydrophobic residue, usually Trp, at position 29, and a H...

[]

0

[ "NCBIFAM" ]

[ "TIGR03083" ]

[ "" ]

[ 34420 ]

1

[]

0

[ "2nsf", "2nsg" ]

2

[ "PUB00042028" ]

[ "17428791" ]

[ "Crystal structures and site-directed mutagenesis of a mycothiol-dependent enzyme reveal a novel folding and molecular basis for mycothiol-mediated maleylpyruvate isomerization." ]

[ 2007 ]

1

[]

[ "IPR017518", "IPR017519", "IPR017520" ]

0

3

0

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

[ 34073, 8, 339 ]

3

[]

0

true

Family

Maleylpyruvate isomerase, mycothiol-dependent enzyme

Maleyloyr_isom

5

IPR017518

17,518

Conserved hypothetical protein CHP03084

CHP03084

Family

3,139

false

This family belongs to the larger set of enzymes modeled by . Members are found primarily in the Actinobacteria (Mycobacterium, Streptomyces, etc.). The family of metal-binding proteins is uncharacterised.

[]

0

[ "NCBIFAM" ]

[ "TIGR03084" ]

[ "" ]

[ 3139 ]

1

[]

0

[]

0

[]

0

[ "IPR017517" ]

[]

1

0

1

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

[ 3092, 2, 45 ]

3

[]

0

true

Family

Conserved hypothetical protein CHP03084

CHP03084

6

IPR017519

17,519

Conserved hypothetical protein CHP03085

CHP03085

Family

3,251

false

This family belongs to the larger set of probable enzymes defined by . Members are found primarily in the Actinobacteria (Mycobacterium, Streptomyces, etc.). The family of metal-binding proteins is uncharacterised.

[]

0

[ "NCBIFAM" ]

[ "TIGR03085" ]

[ "" ]

[ 3251 ]

1

[]

0

[]

0

[]

0

[ "IPR017517" ]

[]

1

0

1

[ "Actinomycetota", "metagenomes" ]

[ 3222, 29 ]

2

[]

0

true

Family

Conserved hypothetical protein CHP03085

CHP03085

4

IPR017520

17,520

Conserved hypothetical protein CHP03086

CHP03086

Family

8,469

false

This family belongs to the larger set of probable enzymes defined by . Members are found primarily in the Actinobacteria (Mycobacterium, Streptomyces, etc.). The family of metal-binding proteins is uncharacterised.

[]

0

[ "NCBIFAM" ]

[ "TIGR03086" ]

[ "" ]

[ 8469 ]

1

[]

0

[]

0

[]

0

[ "IPR017517" ]

[]

1

0

1

[ "Bacteria", "Geodia barretti", "metagenomes" ]

[ 8425, 1, 43 ]

3

[]

0

true

Family

Conserved hypothetical protein CHP03086

CHP03086

1

IPR017521

17,521

Sugar transferase, PEP-CTERM, Stp1

Sugar_tfrase_PEP-CTERM_Stp1

Family

1,058

false

Members of this family contain a glycosyl transferase group 1 domain. Nearly all are found in species that encode the PEP-CTERM/exosortase system predicted to act in protein sorting in a number of Gram-negative bacteria. In particular, these transferases are found proximal to a particular variant of exosortase, EpsH1, ...

[]

0

[ "NCBIFAM" ]

[ "TIGR03087" ]

[ "stp1" ]

[ 1058 ]

1

[ "GP" ]

[ "GenProp0652" ]

[ "GP:GenProp0652" ]

1

[]

0

[]

0

[]

0

null

[ "Bacteria", "metagenomes" ]

[ 1048, 10 ]

2

[]

0

true

Family

Sugar transferase, PEP-CTERM, Stp1

Sugar_tfrase_PEP-CTERM_Stp1

3

IPR017522

17,522

Sugar transferase, PEP-CTERM, Stp2

Sugar_tfrase_PEP-CTERM_Stp2

Family

479

false

Members of this family contain a glycosyl transferase group 1 domain. Nearly all are found in species that encode the PEP-CTERM/exosortase system predicted to act in protein sorting in a number of Gram-negative bacteria. In particular, these transferases are found proximal to a particular variant of exosortase, EpsH1, ...

[]

0

[ "NCBIFAM" ]

[ "TIGR03088" ]

[ "stp2" ]

[ 479 ]

1

[ "GP" ]

[ "GenProp0652" ]

[ "GP:GenProp0652" ]

1

[]

0

[]

0

[]

0

null

[ "Pseudomonadati", "ecological metagenomes" ]

[ 475, 4 ]

2

[]

0

true

Family

Sugar transferase, PEP-CTERM, Stp2

Sugar_tfrase_PEP-CTERM_Stp2

2

IPR017524

17,524

Small acid-soluble spore protein, thioredoxin-like

SASP_thioredoxin-like

Family

1,351

false

This protein family is restricted to a subset of endospore-forming bacteria such as Bacillus subtilis, all of which are in the Firmicutes (low-GC Gram-positive) lineage. Although previously designated tlp (thioredoxin-like protein), the B. subtilis protein was shown to be a minor small acid-soluble spore protein SASP, ...

[]

0

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

[ "MF_01506", "PF19824", "TIGR03090" ]

[ "Tlp", "Tlp", "SASP_tlp" ]

[ 1239, 1351, 1207 ]

3

[]

0

[]

0

[]

0

[]

0

null

[ "Bacillota", "ecological metagenomes" ]

[ 1342, 9 ]

2

[]

0

true

Family

Small acid-soluble spore protein, thioredoxin-like

SASP_thioredoxin-like

8

IPR017525

17,525

Small, acid-soluble spore protein I

SspI

Family

1,327

false

This protein family is restricted to a subset of endospore-forming bacteria, such as Bacillus subtilis, all of which are in the Firmicutes (low-GC Gram-positive) lineage. It is a minor SASP (small, acid-soluble spore protein) designated SspI. The gene in B. subtilis was previously designated ysfA.

[ "GO:0030436" ]

[ "asexual sporulation" ]

[ "biological_process" ]

1

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

[ "MF_00669", "PF14098", "TIGR03092" ]

[ "SspI", "SSPI", "SASP_sspI" ]

[ 1298, 1327, 1209 ]

3

[]

0

[]

0

[]

0

[]

0

null

[ "Bacillati", "human gut metagenome" ]

[ 1326, 1 ]

2

[]

0

true

Family

Small, acid-soluble spore protein I

SspI

1

IPR017527

17,527

Nitrosocyanin

Family

36

false

Nitrosocyanin, as described from the obligate chemolithoautotroph Nitrosomonas europaea, is a red copper protein of unknown function with sequence similarity to a number of blue copper redox proteins [ ]. The structure of nitrosocyanin is a trimer of single domain cupredoxins [ ]. Nitroscocyanin may mediate electron tr...

[]

0

[ "NCBIFAM", "CDD" ]

[ "TIGR03096", "cd04215" ]

[ "nitroso_cyanin", "Nitrosocyanin" ]

[ 35, 36 ]

2

[]

0

[ "1iby", "1ibz", "1ic0" ]

3

[ "PUB00025967", "PUB00043054", "PUB00081021" ]

[ "11341832", "11827513", "15755175" ]

[ "Crystal structure of a novel red copper protein from Nitrosomonas europaea.", "Nitrosocyanin, a red cupredoxin-like protein from Nitrosomonas europaea.", "Spectroscopic and density functional studies of the red copper site in nitrosocyanin: role of the protein in determining active site geometric and electroni...

[ 2001, 2002, 2005 ]

3

[]

0

null

[ "Bacteria" ]

[ 36 ]

1

[]

0

true

Family

Nitrosocyanin

4

IPR017528

17,528

Conserved hypothetical protein CHP03097, O-antigen ligase-related

CHP03097O-antigen_lig-rel

Family

888

false

These proteins in this entry all have multiple transmembrane domains and are related to or are members of the O-antigen ligase family. This group is associated with genomes and usually genomic contexts containing elements of the exosortase/PEP-CTERM protein export system [ ], specifically the type 1 variety of this sys...

[]

0

[ "NCBIFAM" ]

[ "TIGR03097" ]

[ "PEP_O_lig_1" ]

[ 888 ]

1

[ "GP" ]

[ "GenProp0652" ]

[ "GP:GenProp0652" ]

1

[]

0

[ "PUB00034422" ]

[ "16930487" ]

[ "Exopolysaccharide-associated protein sorting in environmental organisms: the PEP-CTERM/EpsH system. Application of a novel phylogenetic profiling heuristic." ]

[ 2006 ]

1

[ "IPR051533" ]

[]

1

0

1

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

[ 876, 2, 10 ]

3

[]

0

true

Family

Conserved hypothetical protein CHP03097, O-antigen ligase-related

CHP03097O-antigen_lig-rel

7

IPR017529

17,529

Acyl-CoA ligase (AMP-forming), exosortase system type 1 associated

AcylCoA_ligase_PEP_1

Family

1,174

false

This group of proteins contains an AMP-binding domain associated with acyl CoA-ligases. These proteins are generally found in genomes containing the exosortase/PEP-CTERM protein export system [ ], specifically the type 1 variant of this system described by . When found in this context they are invariably present next t...

[]

0

[ "NCBIFAM" ]

[ "TIGR03098" ]

[ "ligase_PEP_1" ]

[ 1174 ]

1

[ "GP" ]

[ "GenProp0652" ]

[ "GP:GenProp0652" ]

1

[]

0

[ "PUB00034422" ]

[ "16930487" ]

[ "Exopolysaccharide-associated protein sorting in environmental organisms: the PEP-CTERM/EpsH system. Application of a novel phylogenetic profiling heuristic." ]

[ 2006 ]

1

[]

0

null

[ "Bacteria", "Capitella teleta", "metagenomes" ]

[ 1167, 1, 6 ]

3

[]

0

true

Family

Acyl-CoA ligase (AMP-forming), exosortase system type 1 associated

AcylCoA_ligase_PEP_1

6

IPR017530

17,530

Pyridoxal-dependent decarboxylase, exosortase system type 1 associated

DCO2ase_PEP1

Family

1,147

false

The sequences in this family contain the pyridoxal binding domain and C-terminal sheet domain of a family of Pyridoxal-dependent decarboxylases. Characterised enzymes in this family decarboxylate substrates such as ornithine, diaminopimelate and arginine. The proteins found in tyhis entry, with the exception of those o...

[]

0

[ "NCBIFAM" ]

[ "TIGR03099" ]

[ "dCO2ase_PEP1" ]

[ 1147 ]

1

[ "GP" ]

[ "GenProp0652" ]

[ "GP:GenProp0652" ]

1

[]

0

[ "PUB00034422" ]

[ "16930487" ]

[ "Exopolysaccharide-associated protein sorting in environmental organisms: the PEP-CTERM/EpsH system. Application of a novel phylogenetic profiling heuristic." ]

[ 2006 ]

1

[ "IPR000183" ]

[]

1

0

1

[ "Bacteria", "metagenomes" ]

[ 1138, 9 ]

2

[]

0

true

Family

Pyridoxal-dependent decarboxylase, exosortase system type 1 associated

DCO2ase_PEP1

1

IPR017531

17,531

Hydrolase, ortholog 1, exosortase system type 1 associated

Hydrolase-1_PEP

Family

706

false

This group of proteins are members of the alpha/beta hydrolase superfamily. These proteins are generally found in genomes containing the exosortase/PEP-CTERM protein export system [ ], specifically the type 1 variant of this system described by . When found in this context they are invariably present in the vicinity of...

[]

0

[ "NCBIFAM" ]

[ "TIGR03100" ]

[ "hydr1_PEP" ]

[ 706 ]

1

[ "GP" ]

[ "GenProp0652" ]

[ "GP:GenProp0652" ]

1

[]

0

[ "PUB00034422" ]

[ "16930487" ]

[ "Exopolysaccharide-associated protein sorting in environmental organisms: the PEP-CTERM/EpsH system. Application of a novel phylogenetic profiling heuristic." ]

[ 2006 ]

1

[]

0

null

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

[ 698, 2, 6 ]

3

[]

0

true

Family

Hydrolase, ortholog 1, exosortase system type 1 associated

Hydrolase-1_PEP

9

IPR017532

17,532

Hydrolase, ortholog 2, exosortase system type 1 associated

Hydrolase-2_PEP

Family

341

false

This group of proteins are members of the alpha/beta hydrolase superfamily. These proteins are generally found in genomes containing the exosortase/PEP-CTERM protein export system [ ], specifically the type 1 variant of this system described by . When found in this context they are invariably present in the vicinity of...

[]

0

[ "NCBIFAM" ]

[ "TIGR03101" ]

[ "hydr2_PEP" ]

[ 341 ]

1

[ "GP" ]

[ "GenProp0652" ]

[ "GP:GenProp0652" ]

1

[]

0

[ "PUB00034422" ]

[ "16930487" ]

[ "Exopolysaccharide-associated protein sorting in environmental organisms: the PEP-CTERM/EpsH system. Application of a novel phylogenetic profiling heuristic." ]

[ 2006 ]

1

[]

0

null

[ "Bacteria", "mine drainage metagenome" ]

[ 339, 2 ]

2

[]

0

true

Family

Hydrolase, ortholog 2, exosortase system type 1 associated

Hydrolase-2_PEP

5

IPR017533

17,533

Halocyanin, copper-binding domain

Halocyanin

Domain

1,081

false

Halocyanins are blue (type I) copper redox proteins found in halophilic archaea such as Natronomonas pharaonis (Natronobacterium pharaonis). Halocyanin from from N. pharaonis has been characterised and shown to be a small blue copper protein with a molecular mass of about 15.5kDa [ , ]. This protein, which was named ha...

[]

0

[ "NCBIFAM" ]

[ "TIGR03102" ]

[ "halo_cynanin" ]

[ 1081 ]

1

[]

0

[]

0

[ "PUB00002847", "PUB00043429" ]

[ "8195126", "8251512" ]

[ "The primary structure of halocyanin, an archaeal blue copper protein, predicts a lipid anchor for membrane fixation.", "Halocyanin, an archaebacterial blue copper protein (type I) from Natronobacterium pharaonis." ]

[ 1994, 1993 ]

2

[ "IPR000923" ]

[]

1

0

1

[ "Halobacteria", "Salinibacter ruber" ]

[ 1077, 4 ]

2

[]

0

true

Domain

Halocyanin, copper-binding domain

Halocyanin

5

IPR017534

17,534

GNAT-acetyltransferase

Family

1,771

false

Members of this protein family belong to the GNAT family of acetyltransferases. Each is part of a conserved three-gene cassette sparsely distributed across at least twenty different species known so far, including alpha, beta, and gamma Proteobacteria, Mycobacterium, and Prosthecochloris, which is a member of the Chlor...

[]

0

[ "NCBIFAM" ]

[ "TIGR03103" ]

[ "trio_acet_GNAT" ]

[ 1771 ]

1

[ "GP" ]

[ "GenProp0668" ]

[ "GP:GenProp0668" ]

1

[]

0

[]

0

[]

0

null

[ "Bacteria", "Cladocopium goreaui", "marine sediment metagenome" ]

[ 1768, 1, 2 ]

3

[]

0

true

Family

GNAT-acetyltransferase

9

IPR017535

17,535

Asparagine synthase family amidotransferase

Asparagine_synth

Family

2,724

false

Members of this protein family are closely related to several isoforms of asparagine synthetase (glutamine amidotransferase) and typically have been given this name in genome annotations to date. Each is part of a conserved three-gene cassette sparsely distributed across at least twenty different species known so far, ...

[]

0

[ "NCBIFAM" ]

[ "TIGR03104" ]

[ "trio_amidotrans" ]

[ 2724 ]

1

[ "GP" ]

[ "GenProp0668" ]

[ "GP:GenProp0668" ]

1

[]

0

[]

0

[ "IPR006426" ]

[]

1

0

1

[ "Bacteria", "ecological metagenomes" ]

[ 2689, 35 ]

2

[]

0

true

Family

Asparagine synthase family amidotransferase

Asparagine_synth

5

IPR017536

17,536

Glutamine synthetase, type III

Glutamine_synthetase_typeIII

Family

2,350

false

This family consists of the type III isozyme of glutamine synthetase (GS), originally described in Rhizobium meliloti (Sinorhizobium meliloti), where types I and II also occur [ ]. This family also includes the GSIII-like protein gamma-glutamylmethylamide synthetase, also known as glutamate--methylamine ligase [ ].

[]

0

[ "NCBIFAM" ]

[ "TIGR03105" ]

[ "gln_synth_III" ]

[ 2350 ]

1

[]

0

[ "7cql", "7cqn", "7cqq", "7cqu", "7cqw", "7cqx" ]

6

[ "PUB00043055", "PUB00084386" ]

[ "8093245", "19943898" ]

[ "Isolation and characterization of a novel glutamine synthetase from Rhizobium meliloti.", "Genetics of the glutamate-mediated methylamine utilization pathway in the facultative methylotrophic beta-proteobacterium Methyloversatilis universalis FAM5." ]

[ 1993, 2010 ]

2

[]

0

null

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

[ 2257, 49, 1, 43 ]

4

[]

0

true

Family

Glutamine synthetase, type III

Glutamine_synthetase_typeIII

4

IPR017537

17,537

Peptidase M42, hydrolase

Peptidase_M42_hydrolase

Family

1,587

false

This entry contains sequences related to MEROPS peptidase family M42, a glutamyl aminopeptidase family that also includes the cellulase CelM from Clostridium thermocellum and deblocking aminopeptidases that can remove acylated amino acids. Members of this family occur in a three gene cassette with an amidotransferase (...

[]

0

[ "NCBIFAM" ]

[ "TIGR03106" ]

[ "trio_M42_hydro" ]

[ 1587 ]

1

[ "GP" ]

[ "GenProp0668" ]

[ "GP:GenProp0668" ]

1

[]

0

[]

0

[ "IPR008007" ]

[]

1

0

1

[ "Bacteria", "Eukaryota", "marine sediment metagenome" ]

[ 1583, 2, 2 ]

3

[]

0

true

Family

Peptidase M42, hydrolase

Peptidase_M42_hydrolase

9

IPR017538

17,538

Peptidase M42, glutamyl aminopeptidase

Pept_M42_glutamyl_aminopept

Family

877

false

Over 70 metallopeptidase families have been identified to date. In these enzymes a divalent cation, which is usually zinc but may be cobalt, manganese or copper, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. In some families of co-catalytic metallopeptidase...

[]

0

[ "NCBIFAM" ]

[ "TIGR03107" ]

[ "glu_aminopep" ]

[ 877 ]

1

[]

0

[ "3kl9" ]

1

[ "PUB00003579" ]

[ "7674922" ]

[ "Evolutionary families of metallopeptidases." ]

[ 1995 ]

1

[ "IPR008007" ]

[]

1

0

1

[ "Bacteria" ]

[ 877 ]

1

[]

0

true

Family

Peptidase M42, glutamyl aminopeptidase

Pept_M42_glutamyl_aminopept

8

IPR017539

17,539

XrtA/PEP-CTERM system amidotransferase

XrtA_amidotfase

Family

889

false

The predicted protein-sorting transpeptidase that we call exosortase (see ) has distinct subclasses that associated with different types of exopolysaccharide production loci. This entry represents a distinct clade among a set of amidotransferases largely annotated (not necessarily accurately) as glutamine-hydrolysing a...

[]

0

[ "NCBIFAM" ]

[ "TIGR03108" ]

[ "eps_aminotran_1" ]

[ 889 ]

1

[ "GP" ]

[ "GenProp0652" ]

[ "GP:GenProp0652" ]

1

[]

0

[]

0

[ "IPR006426" ]

[]

1

0

1

[ "Heterosigma akashiwo", "Pseudomonadati", "ecological metagenomes" ]

[ 1, 881, 7 ]

3

[]

0

true

Family

XrtA/PEP-CTERM system amidotransferase

XrtA_amidotfase

7

IPR017540

17,540

Exosortase 1

Exosortase-1

Family

1,081

false

This entry represents predicted protein-sorting transpeptidases, called exosortases (see ), which have distinct subclasses that associate with different types of exopolysaccharide production loci. This is the most common type, exosortase 1/CrtA; it is analogous to srtA, which represents the most common type of sortase ...

[]

0

[ "NCBIFAM" ]

[ "TIGR03109" ]

[ "exosort_XrtA" ]

[ 1081 ]

1

[ "GP" ]

[ "GenProp0652" ]

[ "GP:GenProp0652" ]

1

[]

0

[]

0

[ "IPR013426" ]

[]

1

0

1

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

[ 1067, 1, 13 ]

3

[]

0

true

Family

Exosortase 1

Exosortase-1

9

IPR017541

17,541

Exosortase family protein XrtG

Exosort-XrtG

Family

188

false

Members of this protein family are found in a modest number of non-pathogenic Gram-positive bacteria, including three species of Lactococcus. Three paralogues exist in Clostridium acetobutylicum. This protein appears related to the conserved core region of a family of proposed transpeptidases, exosortase (previously Ep...

[]

0

[ "NCBIFAM" ]

[ "TIGR03110" ]

[ "exosort_Gpos" ]

[ 188 ]

1

[ "GP" ]

[ "GenProp0669" ]

[ "GP:GenProp0669" ]

1

[]

0

[]

0

[ "IPR019127" ]

[]

1

0

1

[ "Bacillati" ]

[ 188 ]

1

[]

0

true

Family

Exosortase family protein XrtG

Exosort-XrtG

3

IPR017542

17,542

XrtG-associated glycosyltransferase

XrtG-assoc_glycosyltfrase

Family

200

false

Members of this protein family are probable glycosyltransferases of family 2, whose genes are near those for the exosortase homologue XrtG ( ), which is restricted to Gram-positive bacteria. Other genes in the conserved gene neighbourhood include a 6-pyruvoyl tetrahydropterin synthase homologue ( ) and an uncharacteris...

[]

0

[ "NCBIFAM" ]

[ "TIGR03111" ]

[ "glyc2_xrt_Gpos1" ]

[ 200 ]

1

[ "GP" ]

[ "GenProp0669" ]

[ "GP:GenProp0669" ]

1

[]

0

[]

0

[]

0

null

[ "Bacillati" ]

[ 200 ]

1

[]

0

true

Family

XrtG-associated glycosyltransferase

XrtG-assoc_glycosyltfrase

8

IPR017544

17,544

Exosortase 2

Exosortase-2

Family

342

false

This entry includes predicted protein-sorting transpeptidases called exosortases (see ) which have distinct subclasses associated with different types of exopolysaccharide production loci. Members of this entry are relatively uncommon proteobacterial type designated to be type 2/XrtB. This entry includes the probable e...

[]

0

[ "NCBIFAM" ]

[ "TIGR03113" ]

[ "exosort_XrtB" ]

[ 342 ]

1

[ "GP" ]

[ "GenProp0655" ]

[ "GP:GenProp0655" ]

1

[]

0

[ "PUB00034422" ]

[ "16930487" ]

[ "Exopolysaccharide-associated protein sorting in environmental organisms: the PEP-CTERM/EpsH system. Application of a novel phylogenetic profiling heuristic." ]

[ 2006 ]

1

[ "IPR013426" ]

[]

1

0

1

[ "Pseudomonadota", "ecological metagenomes" ]

[ 338, 4 ]

2

[]

0

true

Family

Exosortase 2

Exosortase-2

3

IPR017546

17,546

CRISPR type IV/AFERR-associated protein Csf2

CRISPR-assoc_prot_Csf2

Family

23

false

This entry represents the Csf2 family of Cas proteins. Members of this family show up near CRISPR repeats in Acidithiobacillus ferrooxidans ATCC 23270, Azoarcus sp. (strain EbN1), and Rhodoferax ferrireducens (strain DSM 15236/ATCC BAA-621/T118). In the latter two species, the CRISPR/cas locus is found on a plasmid. Th...

[]

0

[ "NCBIFAM" ]

[ "TIGR03115" ]

[ "cas7_csf2" ]

[ 23 ]

1

[ "GP", "GP" ]

[ "GenProp0021", "GenProp0670" ]

[ "GP:GenProp0021", "GP:GenProp0670" ]

2

[ "7xfz", "7xg0", "7xg1", "7xg2", "7xg3", "7xg4", "8rc3", "8rfj" ]

8

[ "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

[ "Pseudomonadati", "metagenomes" ]

[ 21, 2 ]

2

[]

0

true

Family

CRISPR type IV/AFERR-associated protein Csf2

CRISPR-assoc_prot_Csf2

9

IPR017548

17,548

CRISPR-associated DEAD/DEAH-box helicase Csf4

CRISPR-assoc_helicase_Csf4

Family

9

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 Csf4 family of DEAD/DEAH-box helicases. Members of this Cas family show up near CRISPR repeats in Acidithiobacillus ferroo...

[]

0

[ "NCBIFAM" ]

[ "TIGR03117" ]

[ "cas_csf4" ]

[ 9 ]

1

[ "GP", "GP" ]

[ "GenProp0021", "GenProp0670" ]

[ "GP:GenProp0021", "GP:GenProp0670" ]

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

[ "Pseudomonadati", "mine drainage metagenome" ]

[ 8, 1 ]

2

[]

0

true

Family

CRISPR-associated DEAD/DEAH-box helicase Csf4

CRISPR-assoc_helicase_Csf4

4

IPR017549

17,549

Acanthamoeba polyphaga mimivirus, L690

APMV_L690

Domain

887

false

This entry is represented by Acanthamoeba polyphaga mimivirus, L690. These proteins are uncharacterised. Members are found with a C-terminal putative exosortase interaction domain, PEP-CTERM, in Nitrosospira multiformis, Rhodoferax ferrireducens, Solibacter usitatus (strain Ellin6076), and Acidobacteria bacterium (stra...

[]

0

[ "NCBIFAM" ]

[ "TIGR03118" ]

[ "PEPCTERM_chp_1" ]

[ 887 ]

1

[]

0

[]

0

[]

0

[]

0

null

[ "Acanthamoeba castellanii (strain ATCC 30010 / Neff)", "Bacteria", "Candidatus Methanoperedens nitratireducens", "Viruses", "unclassified sequences" ]

[ 1, 787, 1, 91, 7 ]

5

[]

0

true

Domain

Acanthamoeba polyphaga mimivirus, L690

APMV_L690

9

IPR017550

17,550

Formylmethanofuran dehydrogenase subunit C

Formylmethanofuran_DH_suC

Domain

1,140

false

This entry represents the C subunit of formylmethanofuran dehydrogenase ( ), which is involved in methane biosynthesis from carbon dioxide [ , ]. This oxygen-labile enzyme catalyses the reversible oxidation of carbon dioxide and methanofuran (MFR) to N-formylmethanofuran (CHO-MFR). There is a tungsten-containing (Fwd) ...

[ "GO:0018493", "GO:0046914", "GO:0015948" ]

[ "formylmethanofuran dehydrogenase activity", "transition metal ion binding", "methanogenesis" ]

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

3

[ "NCBIFAM", "CDD" ]

[ "TIGR03122", "cd00980" ]

[ "one_C_dehyd_C", "FwdC/FmdC" ]

[ 1140, 441 ]

2

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

[ "1.2.7.12", "GenProp0671", "PWY-5209", "PWY-7784", "PWY-8305" ]

[ "EC:1.2.7.12", "GP:GenProp0671", "METACYC:PWY-5209", "METACYC:PWY-7784", "METACYC:PWY-8305" ]

5

[ "5t5i", "5t5m", "5t61", "6s6y", "7bkb", "7bkc", "8rja" ]

7

[ "PUB00016198", "PUB00042894", "PUB00044687" ]

[ "11532013", "12102556", "11913137" ]

[ "Characterization of the formyltransferase from Methylobacterium extorquens AM1.", "The unique biochemistry of methanogenesis.", "Molybdenum and tungsten enzymes in C1 metabolism." ]

[ 2001, 2002, 2002 ]

3

[ "IPR002489" ]

[]

1

0

1

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

[ 426, 687, 27 ]

3

[]

0

true

Domain

Formylmethanofuran dehydrogenase subunit C

Formylmethanofuran_DH_suC

1

IPR017551

17,551

Triphosphoribosyl-dephospho-CoA synthase CitG

TriPribosyl-deP-CoA_syn_CitG

Family

2,880

false

Triphosphoribosyl-dephospho-CoA is transferred to, and becomes the prosthetic group of, the respective acyl carrier protein subunits of both citrate lyase and malonate decarboxylase. Members of this protein family are triphosphoribosyl-dephospho-CoA synthases specifically from citrate lyase systems [ , ]. CitG sometime...

[ "GO:0005524", "GO:0046917", "GO:0016310" ]

[ "ATP binding", "triphosphoribosyl-dephospho-CoA synthase activity", "phosphorylation" ]

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

3

[ "HAMAP", "NCBIFAM" ]

[ "MF_00397", "TIGR03125" ]

[ "CitG", "citrate_citG" ]

[ 2786, 2769 ]

2

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

[ "2.4.2.52", "GenProp0672", "PWY-5796" ]

[ "EC:2.4.2.52", "GP:GenProp0672", "METACYC:PWY-5796" ]

3

[]

0

[ "PUB00008049", "PUB00014742" ]

[ "11042274", "10924139" ]

[ "Identification of triphosphoribosyl-dephospho-CoA as precursor of the citrate lyase prosthetic group.", "Biosynthesis of the prosthetic group of citrate lyase." ]

[ 2000, 2000 ]

2

[ "IPR002736" ]

[]

1

0

1

[ "Bacteria", "Candidatus Methanofastidiosum methylothiophilum", "Lucilia cuprina", "bioreactor metagenome" ]

[ 2870, 4, 1, 5 ]

4

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Triphosphoribosyl-dephospho-CoA synthase CitG

TriPribosyl-deP-CoA_syn_CitG

2

IPR017552

17,552

3-hexulose-6-phosphate isomerase

PHI/rmpB

Family

4,347

false

6-phospho 3-hexuloisomerase (PHI, also known as rmpB) is part of the ribulose monophosphate (RuMP) pathway, which in one direction removes the toxic metabolite formaldehyde by assimilation into fructose-6-phosphate [ ]. In the other direction, in species lacking a complete pentose phosphate pathway, the RuMP pathway yi...

[ "GO:0016853" ]

[ "isomerase activity" ]

[ "molecular_function" ]

1

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

[ "PTHR43443", "TIGR03127", "cd05005" ]

[ "", "RuMP_HxlB", "SIS_PHI" ]

[ 4314, 3233, 3380 ]

3

[ "GP", "GP" ]

[ "GenProp0673", "GenProp1732" ]

[ "GP:GenProp0673", "GP:GenProp1732" ]

2

[ "1jeo", "1m3s", "1vim", "1viv", "9lj9" ]

5

[ "PUB00070744" ]

[ "10648518" ]

[ "A novel operon encoding formaldehyde fixation: the ribulose monophosphate pathway in the gram-positive facultative methylotrophic bacterium Mycobacterium gastri MB19." ]

[ 2000 ]

1

[]

0

null

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

[ 505, 3249, 535, 58 ]

4

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

[ 4, 2, 2 ]

3

true

Family

3-hexulose-6-phosphate isomerase

PHI/rmpB

8

IPR017553

17,553

3-hexulose-6-phosphate synthase

3-hexulose-6-phosphate_synth

Domain

2,225

false

Proteins in this entry are 3-hexulose-6-phosphate synthase (HPS), or the HPS domain of a fusion protein. This enzyme is part of the ribulose monophosphate (RuMP) pathway, which in one direction removes the toxic metabolite formaldehyde by assimilation into fructose-6-phosphate. In the other direction, in species lackin...

[ "GO:0043801", "GO:0005975" ]

[ "hexulose-6-phosphate synthase activity", "carbohydrate metabolic process" ]

[ "molecular_function", "biological_process" ]

2

[ "NCBIFAM" ]

[ "TIGR03128" ]

[ "RuMP_HxlA" ]

[ 2225 ]

1

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

[ "4.1.2.43", "GenProp0673", "PWY-1861", "PWY-7796" ]

[ "EC:4.1.2.43", "GP:GenProp0673", "METACYC:PWY-1861", "METACYC:PWY-7796" ]

4

[ "3ajx", "3f4w", "9lj9" ]

3

[]

0

[ "IPR001754" ]

[]

1

0

1

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

[ 178, 2024, 2, 21 ]

4

[]

0

true

Domain

3-hexulose-6-phosphate synthase

3-hexulose-6-phosphate_synth

4

IPR017554

17,554

Malonate decarboxylase, McdH subunit

Malonate_deCOase_MdcHsu

Family

1,843

false

The McdH subunit of malonate decarboxylase is a malonyl-CoA:ACP transacylase [ ]. It initiates the activation of malonate decarboxylase by malonyl-transfer to an acetylated phosphoribosyl dephospho-CoA prosthetic group on the acyl carrier subunit.

[]

0

[ "NCBIFAM" ]

[ "TIGR03131" ]

[ "malonate_mdcH" ]

[ 1843 ]

1

[ "GP" ]

[ "GenProp0674" ]

[ "GP:GenProp0674" ]

1

[]

0

[ "PUB00056819" ]

[ "9914491" ]

[ "Formation of catalytically active acetyl-S-malonate decarboxylase requires malonyl-coenzyme A:acyl carrier protein transacylase as auxiliary enzyme [corrected]" ]

[ 1999 ]

1

[ "IPR024925" ]

[]

1

0

1

[ "Bacteria" ]

[ 1843 ]

1

[]

0

true

Family

Malonate decarboxylase, McdH subunit

Malonate_deCOase_MdcHsu

7

IPR017555

17,555

Triphosphoribosyl-dephospho-CoA synthase

TriPribosyl-deP-CoA_syn

Family

2,528

false

Triphosphoribosyl-dephospho-CoA synthase (MdcB; ( ) acts in cofactor biosynthesis, preparing the coenzyme A derivative that becomes attached to the malonate decarboxylase acyl carrier protein (or delta subunit) [ ]. The closely related protein CitG of citrate lyase produces the same molecule, but the two families are n...

[ "GO:0005524", "GO:0046917", "GO:0016310" ]

[ "ATP binding", "triphosphoribosyl-dephospho-CoA synthase activity", "phosphorylation" ]

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

3

[ "HAMAP", "NCBIFAM" ]

[ "MF_01883", "TIGR03132" ]

[ "MdcB", "malonate_mdcB" ]

[ 2390, 2458 ]

2

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

[ "2.4.2.52", "GenProp0674", "PWY-5796" ]

[ "EC:2.4.2.52", "GP:GenProp0674", "METACYC:PWY-5796" ]

3

[]

0

[ "PUB00043058" ]

[ "11052675" ]

[ "Biosynthesis of triphosphoribosyl-dephospho-coenzyme A, the precursor of the prosthetic group of malonate decarboxylase." ]

[ 2000 ]

1

[ "IPR002736" ]

[]

1

0

1

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

[ 2514, 1, 13 ]

3

[]

0

true

Family

Triphosphoribosyl-dephospho-CoA synthase

TriPribosyl-deP-CoA_syn

1

IPR017556

17,556

Biotin-independent malonate decarboxylase, beta subunit

Malonate_beta

Family

2,745

false

Members of this protein family are the beta subunit of malonate decarboxylase. Malonate decarboxylase may be a soluble enzyme, or linked to membrane subunits and active as a sodium pump. In the malonate decarboxylase complex, the beta subunit appears to act as a malonyl-CoA decarboxylase [ ].

[ "GO:0016831", "GO:0005975" ]

[ "carboxy-lyase activity", "carbohydrate metabolic process" ]

[ "molecular_function", "biological_process" ]

2

[ "NCBIFAM" ]

[ "TIGR03133" ]

[ "malonate_beta" ]

[ 2745 ]

1

[ "GP" ]

[ "GenProp0674" ]

[ "GP:GenProp0674" ]

1

[ "5vip", "5vit", "5vj1" ]

3

[ "PUB00043059" ]

[ "10561613" ]

[ "Functional evaluation of the genes involved in malonate decarboxylation by Acinetobacter calcoaceticus." ]

[ 1999 ]

1

[]

0

null

[ "Bacteria", "Candidatus Methanofastidiosum methylothiophilum", "Knufia peltigerae", "metagenomes" ]

[ 2729, 4, 1, 11 ]

4

[]

0

true

Family

Biotin-independent malonate decarboxylase, beta subunit

Malonate_beta

9

IPR017557

17,557

Phosphoribosyl-dephospho-CoA transferase

Holo-ACP_synthase

Family

2,729

false

Members of this protein family are the phosphoribosyl-dephospho-CoA transferase specific to the malonate decarboxylase system. This enzyme can also be designated holo-ACP synthase ( ). The corresponding component of the citrate lyase system, CitX, shows little or no sequence similarity to this family. Malonate decarbox...

[ "GO:0016779" ]

[ "nucleotidyltransferase activity" ]

[ "molecular_function" ]

1

[ "HAMAP", "NCBIFAM" ]

[ "MF_00650", "TIGR03135" ]

[ "Malonate_MdcG", "malonate_mdcG" ]

[ 542, 2729 ]

2

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

[ "2.7.7.66", "GenProp0674", "PWY-5796" ]

[ "EC:2.7.7.66", "GP:GenProp0674", "METACYC:PWY-5796" ]

3

[]

0

[]

0

[]

0

null

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

[ 2716, 2, 11 ]

3

[]

0

true

Family

Phosphoribosyl-dephospho-CoA transferase

Holo-ACP_synthase

4

IPR017558

17,558

Malonate decarboxylase, carboxybiotin decarboxylase subunit, Na+ transporting

Malonate_biotin

Family

75

false

Malonate decarboxylase can be a soluble enzyme, or a sodium ion-translocating with additional membrane-bound components. Members of this protein family are integral membrane proteins required to couple decarboxylation to sodium ion export. This family belongs to a broader family of sodium ion-translocating decarboxylas...

[]

0

[ "NCBIFAM" ]

[ "TIGR03136" ]

[ "malonate_biotin" ]

[ 75 ]

1

[ "GP" ]

[ "GenProp0674" ]

[ "GP:GenProp0674" ]

1

[]

0

[]

0

[ "IPR005661" ]

[]

1

0

1

[ "Bacteria" ]

[ 75 ]

1

[]

0

true

Family

Malonate decarboxylase, carboxybiotin decarboxylase subunit, Na+ transporting

Malonate_biotin

7

IPR017559

17,559

Alkyl hydroperoxide reductase subunit C

AhpC

Family

7,442

false

This peroxiredoxin (AhpC, alkylhydroperoxide reductase subunit C) is one subunit of a two-subunit complex with subunit F( ). Usually these are found as an apparent operon. The gene has been characterised in Bacteroides fragilis [ ] where it is important in oxidative stress defence. This gene contains two invariant cyst...

[ "GO:0051920", "GO:0006979" ]

[ "peroxiredoxin activity", "response to oxidative stress" ]

[ "molecular_function", "biological_process" ]

2

[ "NCBIFAM" ]

[ "TIGR03137" ]

[ "AhpC" ]

[ 7442 ]

1

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

[ "1.11.1.26", "GenProp0213", "GenProp0676" ]

[ "EC:1.11.1.26", "GP:GenProp0213", "GP:GenProp0676" ]

3

[ "1n8j", "1we0", "1yep", "1yex", "1yf0", "1yf1", "3emp", "4ma9", "4mab", "4o5r", "4ql7", "4ql9", "4xra", "4xrd", "4xs1", "4xs4", "4xs6", "4xts", "5b8a", "5b8b", "5uka" ]

21

[ "PUB00042839" ]

[ "10482511" ]

[ "Role of the alkyl hydroperoxide reductase (ahpCF) gene in oxidative stress defense of the obligate Anaerobe bacteroides fragilis." ]

[ 1999 ]

1

[ "IPR024706" ]

[]

1

0

1

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

[ 7402, 5, 35 ]

3

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Alkyl hydroperoxide reductase subunit C

AhpC

8

IPR017560

17,560

Cytochrome c-type biogenesis protein CcmI

Cyt_c_biogenesis_CcmI

Domain

6,307

false

This TPR repeat-containing protein is the CcmI protein (also called CycH) of c-type cytochrome biogenesis. CcmI is thought to act as an apo-cytochrome c chaperone. This entry describes the N-terminal region.

[]

0

[ "NCBIFAM" ]

[ "TIGR03142" ]

[ "cytochro_ccmI" ]

[ 6307 ]

1

[ "GP" ]

[ "GenProp0678" ]

[ "GP:GenProp0678" ]

1

[]

0

[]

0

[]

0

null

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

[ 6219, 6, 82 ]

3

[]

0

true

Domain

Cytochrome c-type biogenesis protein CcmI

Cyt_c_biogenesis_CcmI

2

IPR017561

17,561

Alkyl hydroperoxide reductase F subunit homogue, putative

AhpF_homologue_put

Family

601

false

This family of thioredoxin reductase homologues is found adjacent to the alkylhydroperoxide reductase C subunit predominantly in cases where there is only one C subunit in the genome and that genome is lacking the F subunit partner (AhpF). Subunit F is also a thioredoxin reductase homologue ( ).

[]

0

[ "NCBIFAM" ]

[ "TIGR03143" ]

[ "AhpF_homolog" ]

[ 601 ]

1

[ "GP" ]

[ "GenProp0676" ]

[ "GP:GenProp0676" ]

1

[]

0

[]

0

[]

0

null

[ "Bacteria", "bioreactor metagenome" ]

[ 599, 2 ]

2

[]

0

true

Family

Alkyl hydroperoxide reductase F subunit homogue, putative

AhpF_homologue_put

3

IPR017562

17,562

Cytochrome c-type biogenesis protein CcsA

Cyt_c_biogenesis_CcsA

Family

23,130

false

The CcsA protein family represents one of two essential proteins in system II c-type cytochrome biogenesis [ ]. Additional proteins tend to be part of the system but can often be replaced by chemical reductants such as dithiothreitol. These proteins are often named CcsB in Bordetella and some other bacteria, ResC in Ba...

[ "GO:0017004" ]

[ "cytochrome complex assembly" ]

[ "biological_process" ]

1

[ "HAMAP", "NCBIFAM" ]

[ "MF_01391", "TIGR03144" ]

[ "CytC_CcsA", "cytochr_II_ccsB" ]

[ 14466, 23118 ]

2

[ "GP" ]

[ "GenProp0680" ]

[ "GP:GenProp0680" ]

1

[]

0

[ "PUB00043064" ]

[ "15937156" ]

[ "Mutations in cytochrome assembly and periplasmic redox pathways in Bordetella pertussis." ]

[ 2005 ]

1

[ "IPR045062" ]

[]

1

0

1

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

[ 8287, 14655, 188 ]

3

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

[ 5, 4, 2 ]

3

true

Family

Cytochrome c-type biogenesis protein CcsA

Cyt_c_biogenesis_CcsA

1

IPR017563

17,563

Cytochrome c nitrate reductase biogenesis protein NrfE

CytC_NO3Rdtase_biogenesis_NrfE

Family

218

false

Members of this protein family closely resemble the CcmF protein of the CcmABCDEFGH system, or system I, for c-type cytochrome biogenesis ( ). Members are found, as a rule, next to closely related paralogues of CcmG and CcmH and always located near other genes associated with the cytochrome c nitrite reductase enzyme c...

[]

0

[ "NCBIFAM" ]

[ "TIGR03145" ]

[ "cyt_nit_nrfE" ]

[ 218 ]

1

[ "GP" ]

[ "GenProp0682" ]

[ "GP:GenProp0682" ]

1

[]

0

[]

0

[ "IPR003568" ]

[]

1

0

1

[ "Bacteria" ]

[ 218 ]

1

[]

0

true

Family

Cytochrome c nitrate reductase biogenesis protein NrfE

CytC_NO3Rdtase_biogenesis_NrfE

5

IPR017564

17,564

Cytochrome c-type protein NrfB

Cyt_c_NrfB

Family

1,092

false

Members of this protein family each contain five copies of the CXXCH haem-binding motif, and represent the NrfB component of the multi-subunit enzyme, cytochrome c nitrite reductase.

[ "GO:0020037", "GO:0042597" ]

[ "heme binding", "periplasmic space" ]

[ "molecular_function", "cellular_component" ]

2

[ "NCBIFAM" ]

[ "TIGR03146" ]

[ "cyt_nit_nrfB" ]

[ 1092 ]

1

[ "GP" ]

[ "GenProp0682" ]

[ "GP:GenProp0682" ]

1

[ "2ozy", "2p0b" ]

2

[]

0

[]

0

null

[ "Anopheles maculatus", "Bacteria" ]

[ 1, 1091 ]

2

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Cytochrome c-type protein NrfB

Cyt_c_NrfB

2

IPR017565

17,565

Formate-dependent nitrite reductase complex, subunit NrfF

For-dep_Cytc_NO2Rdtase_NrfF

Domain

1,410

false

The genes NrfE, NrfF, and NrfG are required for the formate-dependent nitrite reduction pathway, which involves at least two C-type cytochrome proteins, NrfA and NrfB. The NrfE, NrfF, and NrfG genes (haem lyase complex) are involved in the maturation of a special C-type cytochrome, apocytochrome C (apoNrfA), to cytochr...

[]

0

[ "NCBIFAM" ]

[ "TIGR03147" ]

[ "cyt_nit_nrfF" ]

[ 1410 ]

1

[ "GP" ]

[ "GenProp0682" ]

[ "GP:GenProp0682" ]

1

[]

0

[ "PUB00042995" ]

[ "17803240" ]

[ "TPR domain of NrfG mediates complex formation between heme lyase and formate-dependent nitrite reductase in Escherichia coli O157:H7." ]

[ 2008 ]

1

[]

0

null

[ "Bacteria", "bioreactor metagenome" ]

[ 1409, 1 ]

2

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Domain

Formate-dependent nitrite reductase complex, subunit NrfF

For-dep_Cytc_NO2Rdtase_NrfF

3

IPR017566

17,566

NrfD

Family

1,496

false

Members of this protein family are NrfD, a highly hydrophobic protein encoded in the nrf operon, which encodes cytochrome c nitrite reductase. This multiple haem-containing enzyme can reduce nitrite to ammonia. Members belong to a broader protein family, which also contains an NrfD-related subunit of polysulphide reduc...

[]

0

[ "NCBIFAM" ]

[ "TIGR03148" ]

[ "cyt_nit_nrfD" ]

[ 1496 ]

1

[ "GP" ]

[ "GenProp0682" ]

[ "GP:GenProp0682" ]

1

[]

0

[]

0

[ "IPR052049" ]

[]

1

0

1

[ "Bacteria" ]

[ 1496 ]

1

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

NrfD

2

IPR017567

17,567

Cytochrome c nitrite reductase, Fe-S protein

Cyt_c_NO2Rdtase_NrfC

Family

1,096

false

Members of this protein family are the Fe-S protein, NrfC, of the cytochrome c nitrite reductase system for which the pentaheme cytochrome c protein, NrfB (family ) is an unambiguous marker. Members of this protein family show similarity to other ferredoxin-like proteins, including a subunit of polysulphide reductase.

[]

0

[ "NCBIFAM" ]

[ "TIGR03149" ]

[ "cyt_nit_nrfC" ]

[ 1096 ]

1

[ "GP" ]

[ "GenProp0682" ]

[ "GP:GenProp0682" ]

1

[]

0

[]

0

[]

0

null

[ "Gammaproteobacteria" ]

[ 1096 ]

1

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Cytochrome c nitrite reductase, Fe-S protein

Cyt_c_NO2Rdtase_NrfC

2

IPR017568

17,568

3-oxoacyl-[acyl-carrier-protein] synthase 2

3-oxoacyl-ACP_synth-2

Family

30,996

false

3-oxoacyl-[acyl-carrier-protein] synthase 2 (KAS-II, FabF) is involved in the condensation step of fatty acid biosynthesis in which the malonyl donor group is decarboxylated and the resulting carbanion used to attack and extend the acyl group attached to the acyl carrier protein [ ]. Most genomes encoding fatty acid bi...

[ "GO:0016747", "GO:0006633" ]

[ "acyltransferase activity, transferring groups other than amino-acyl groups", "fatty acid biosynthetic process" ]

[ "molecular_function", "biological_process" ]

2

[ "PIRSF", "NCBIFAM" ]

[ "PIRSF000447", "TIGR03150" ]

[ "KAS_II", "fabF" ]

[ 28624, 28740 ]

2

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

[ "2.3.1.179", "GenProp0681", "PWY-5367", "PWY-5971", "PWY-5973", "PWY-7388", "PWY-8173", "PWY-8174", "PWY-8175", "PWY-8279", "R-HSA-9837999", "R-MMU-9837999", "R-SPO-9837999" ]

[ "EC:2.3.1.179", "GP:GenProp0681", "METACYC:PWY-5367", "METACYC:PWY-5971", "METACYC:PWY-5973", "METACYC:PWY-7388", "METACYC:PWY-8173", "METACYC:PWY-8174", "METACYC:PWY-8175", "METACYC:PWY-8279", "REACTOME:R-HSA-9837999", "REACTOME:R-MMU-9837999", "REACTOME:R-SPO-9837999" ]

13

[ "1b3n", "1e5m", "1j3n", "1kas", "1ox0", "1oxh", "1w0i", "2alm", "2c9h", "2gfv", "2gfw", "2gfx", "2gfy", "2gqd", "2iwy", "2iwz", "2ix4", "2rjt", "3e60", "3g0y", "3g11", "3hnz", "3ho2", "3ho9", "3i8p", "3kzu", "3o04", "4b7v", "4ddo", "4f32", "4jb6", "4jga"...

122

[ "PUB00024434", "PUB00036842" ]

[ "11152607", "16441657" ]

[ "The crystal structure of beta-ketoacyl-acyl carrier protein synthase II from Synechocystis sp. at 1.54 A resolution and its relationship to other condensing enzymes.", "Fatty acid synthesis. Role of active site histidines and lysine in Cys-His-His-type beta-ketoacyl-acyl carrier protein synthases." ]

[ 2001, 2006 ]

2

[ "IPR000794" ]

[]

1

0

1

[ "Bacteria", "Eukaryota", "unclassified sequences", "uncultured crenarchaeote MCG" ]

[ 25151, 5496, 348, 1 ]

4

[ "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", "Schizosaccharomyces pomb...

[ 11, 2, 2, 1, 1, 2, 1, 12, 2, 1, 23 ]

11

true

Family

3-oxoacyl-[acyl-carrier-protein] synthase 2

3-oxoacyl-ACP_synth-2

6

IPR017569

17,569

Enoyl-(acyl-carrier-protein) reductase II, putative

Enoyl_ACP_red-II_put

Family

1,779

false

This oxidoreductase of the 2-nitropropane dioxygenase family is commonly found in apparent operons with genes involved in fatty acid biosynthesis. Furthermore, this genomic context generally includes fabG, 3-oxoacyl-[ACP] reductase, and lacks the fabI enoyl-[ACP] reductase.

[]

0

[ "NCBIFAM" ]

[ "TIGR03151" ]

[ "enACPred_II" ]

[ 1779 ]

1

[ "GP" ]

[ "GenProp0681" ]

[ "GP:GenProp0681" ]

1

[ "2z6i", "2z6j", "3bo9", "5gvh", "5gvj", "7l00" ]

6

[]

0

[]

0

null

[ "Bacteria", "ecological metagenomes" ]

[ 1765, 14 ]

2

[]

0

true

Family

Enoyl-(acyl-carrier-protein) reductase II, putative

Enoyl_ACP_red-II_put

6

IPR017570

17,570

Formate-dependent cytochrome c nitrite reductase, c552 subunit

Cyt_c_NO2Rdtase_formate-dep

Family

2,069

false

Members of this protein family represent cytochrome c552, a component of cytochrome c nitrite reductase, which is known more formally as nitrite reductase (cytochrome; ammonia-forming, ). Nitrite can be reduced by several enzymes: reduces nitrite all the way to ammonia, rather than to ammonium hydroxide (ammonia:ferric...

[ "GO:0005509", "GO:0020037", "GO:0042279", "GO:0042597" ]

[ "calcium ion binding", "heme binding", "nitrite reductase (cytochrome, ammonia-forming) activity", "periplasmic space" ]

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

4

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

[ "MF_01182", "NF008339", "TIGR03152" ]

[ "Cytochrom_C552", "PRK11125.1", "cyto_c552_HCOOH" ]

[ 1799, 2069, 1425 ]

3

[ "EC", "METACYC" ]

[ "1.7.2.2", "PWY-5674" ]

[ "EC:1.7.2.2", "METACYC:PWY-5674" ]

2

[ "1fs7", "1fs8", "1fs9", "1gu6", "1qdb", "2e80", "2e81", "2rdz", "2rf7", "3bnf", "3bng", "3bnh", "3bnj", "3l1t", "3tor", "3ubr", "4wjy", "6p73", "9cuf" ]

19

[]

0

[ "IPR003321" ]

[]

1

0

1

[ "Bacteria", "ecological metagenomes" ]

[ 2059, 10 ]

2

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Formate-dependent cytochrome c nitrite reductase, c552 subunit

Cyt_c_NO2Rdtase_formate-dep

5

IPR017571

17,571

Cytochrome c nitrite reductase, small subunit

NrfH

Family

1,032

false

This entry represents NrfH, a tetraheme cytochrome c. NrfH is the cytochrome c nitrite reductase small subunit, and forms a heterodimer with NrfA, the catalytic subunit. While NrfA can act as a monomer, NrfH can bind to and anchor NrfA in the membrane and enable electron transfer to NrfA from quinones [ , ].

[ "GO:0022900", "GO:0016020" ]

[ "electron transport chain", "membrane" ]

[ "biological_process", "cellular_component" ]

2

[ "NCBIFAM" ]

[ "TIGR03153" ]

[ "cytochr_NrfH" ]

[ 1032 ]

1

[ "GP" ]

[ "GenProp0683" ]

[ "GP:GenProp0683" ]

1

[]

0

[ "PUB00043065", "PUB00043066" ]

[ "11722563", "10672190" ]

[ "The tetraheme cytochrome c NrfH is required to anchor the cytochrome c nitrite reductase (NrfA) in the membrane of Wolinella succinogenes.", "A NapC/NirT-type cytochrome c (NrfH) is the mediator between the quinone pool and the cytochrome c nitrite reductase of Wolinella succinogenes." ]

[ 2001, 2000 ]

2

[ "IPR024717" ]

[]

1

0

1

[ "Bacteria", "Candidatus Methanoperedens nitratireducens", "ecological metagenomes" ]

[ 1013, 3, 16 ]

3

[]

0

true

Family

Cytochrome c nitrite reductase, small subunit

NrfH

7

IPR017572

17,572

Cytochrome b558/566, subunit A

Cyt_b558/566_suA

Family

59

false

This entry represents CbsA, a novel, highly glycosylated, mono-haem cytochrome b558/566 found in Sulfolobus acidocaldarius and several other members of the Sulfolobales, a branch of the Crenarchaeota [ , ]. Encoded at the same locus as CbsA are: CbsB, a hydrophobic protein, SoxL, a Rieske iron-sulphur protein, SoxN, a ...

[ "GO:0020037", "GO:0022900", "GO:0005886", "GO:0016020" ]

[ "heme binding", "electron transport chain", "plasma membrane", "membrane" ]

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

4

[ "NCBIFAM" ]

[ "TIGR03154" ]

[ "sulfolob_CbsA" ]

[ 59 ]

1

[ "GP" ]

[ "GenProp0695" ]

[ "GP:GenProp0695" ]

1

[]

0

[ "PUB00043067", "PUB00043422" ]

[ "12887010", "9575144" ]

[ "New genes encoding subunits of a cytochrome bc1-analogous complex in the respiratory chain of the hyperthermoacidophilic crenarchaeon Sulfolobus acidocaldarius.", "Cytochrome b558/566 from the archaeon Sulfolobus acidocaldarius. A novel highly glycosylated, membrane-bound b-type hemoprotein." ]

[ 2003, 1998 ]

2

[]

0

null

[ "Sulfolobaceae" ]

[ 59 ]

1

[]

0

true

Family

Cytochrome b558/566, subunit A

Cyt_b558/566_suA

3

IPR017573

17,573

Cytochrome b558/566 subunit B

CbsB

Family

60

false

This entry represents CbsB (cytochrome b558/566 subunit B), a hydrophobic membrane-bound protein found in thermoacidophilic archaea, particularly within Thermoproteota including Sulfolobaceae members such as Sulfolobus, Saccharolobus, Metallosphaera, and Acidianus [ , ]. The proteins are approximately 310-314 amino aci...

[]

0

[ "PFAM", "NCBIFAM" ]

[ "PF27338", "TIGR03155" ]

[ "CbsB", "sulfolob_CbsB" ]

[ 60, 44 ]

2

[ "GP" ]

[ "GenProp0695" ]

[ "GP:GenProp0695" ]

1

[]

0

[ "PUB00043067", "PUB00043422" ]

[ "12887010", "9575144" ]

[ "New genes encoding subunits of a cytochrome bc1-analogous complex in the respiratory chain of the hyperthermoacidophilic crenarchaeon Sulfolobus acidocaldarius.", "Cytochrome b558/566 from the archaeon Sulfolobus acidocaldarius. A novel highly glycosylated, membrane-bound b-type hemoprotein." ]

[ 2003, 1998 ]

2

[]

0

null

[ "Thermoprotei" ]

[ 60 ]

1

[]

0

true

Family

Cytochrome b558/566 subunit B

CbsB

4

IPR017574

17,574

CRISPR-associated protein Cas7/Csc2

CRISPR-assoc_prot_Cas7/Csc2

Family

437

false

This entry represents the type I-D Cas7/Csc2 family of Cas proteins that are strictly associated with the Cyano subtype of CRISPR/Cas locus and found in several species of Cyanobacteria and several archaeal species. This family is designated Csc2 for CRISPR/Cas Subtype Cyano protein 2, as it is often the second gene up...

[]

0

[ "PFAM", "NCBIFAM" ]

[ "PF18320", "TIGR03157" ]

[ "Csc2", "cas_Csc2" ]

[ 436, 425 ]

2

[ "GP" ]

[ "GenProp0685" ]

[ "GP:GenProp0685" ]

1

[ "4txd", "7sba", "7sbb" ]

3

[ "PUB00009737", "PUB00043286", "PUB00043287", "PUB00043288", "PUB00060621", "PUB00071890", "PUB00138428", "PUB00150950" ]

[ "11952905", "17442114", "17379808", "16545108", "21699496", "24459147", "25483036", "35595728" ]

[ "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, 2014, 2022 ]

8

[]

0

null

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

[ 100, 335, 2 ]

3

[]

0

true

Family

CRISPR-associated protein Cas7/Csc2

CRISPR-assoc_prot_Cas7/Csc2

9

IPR017575

17,575

CRISPR-associated helicase Cas3'

CRISPR-assoc_helicase_Cas3'

Family

350

false

This entry represents a family of Cas proteins that are strictly associated with the Cyano subtype of CRISPR/Cas locus and found in several species of Cyanobacteria and several archaeal species. These proteins contain helicase motifs and appear to represent the Cas3 protein of the Cyano subtype of CRISPR/Cas system. Th...

[]

0

[ "NCBIFAM" ]

[ "TIGR03158" ]

[ "cas3_cyano" ]

[ 350 ]

1

[ "GP" ]

[ "GenProp0685" ]

[ "GP:GenProp0685" ]

1

[]

0

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

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

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

[ 2007, 2007, 2006, 2011, 2014 ]

5

[]

0

null

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

[ 66, 282, 2 ]

3

[]

0

true

Family

CRISPR-associated helicase Cas3'

CRISPR-assoc_helicase_Cas3'

9

IPR017576

17,576

CRISPR-associated protein Csc1

CRISPR-assoc_prot_Csc1

Family

406

false

This entry represents the type I-D Csc1 family of Cas proteins that are strictly associated with the Cyano subtype of CRISPR/Cas locus and found in several species of Cyanobacteria and several archaeal species. This family is designated Csc1 for CRISPR/Cas Subtype Cyano protein 1, as it is often the first gene upstream...

[]

0

[ "PFAM", "NCBIFAM" ]

[ "PF26241", "TIGR03159" ]

[ "Cas_Csc1", "cas_Csc1" ]

[ 406, 362 ]

2

[ "GP" ]

[ "GenProp0685" ]

[ "GP:GenProp0685" ]

1

[ "7sba", "7sbb" ]

2

[ "PUB00009737", "PUB00043286", "PUB00043287", "PUB00043288", "PUB00060621", "PUB00071890", "PUB00150950" ]

[ "11952905", "17442114", "17379808", "16545108", "21699496", "24459147", "35595728" ]

[ "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, 2022 ]

7

[]

0

null

[ "Archaea", "Bacteria", "hydrothermal vent metagenome" ]

[ 94, 311, 1 ]

3

[]

0

true

Family

CRISPR-associated protein Csc1

CRISPR-assoc_prot_Csc1

1

IPR017577

17,577

Alpha-ribazole phosphatase, CobZ

Ribazole_CobZ

Family

131

false

This family includes the experimentally characterised CobZ of the methanogenic archaeon Methanosarcina mazei (Methanosarcina frisia), and other archaeal proteins found similarly next to or very near to other cobalamin biosynthesis genes. CobZ replaces the alpha-ribazole-phosphate phosphatase ( ) called CobC in analogou...

[]

0

[ "NCBIFAM" ]

[ "TIGR03161" ]

[ "ribazole_CobZ" ]

[ 131 ]

1

[ "GP" ]

[ "GenProp0269" ]

[ "GP:GenProp0269" ]

1

[]

0

[ "PUB00043070" ]

[ "16547066" ]

[ "The cobZ gene of Methanosarcina mazei Go1 encodes the nonorthologous replacement of the alpha-ribazole-5'-phosphate phosphatase (CobC) enzyme of Salmonella enterica." ]

[ 2006 ]

1

[]

0

null

[ "Archaea", "ecological metagenomes" ]

[ 129, 2 ]

2

[]

0

true

Family

Alpha-ribazole phosphatase, CobZ

Ribazole_CobZ

8

IPR017580

17,580

2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline decarboxylase, type 1

OHCU_decarboxylase-1

Domain

6,060

false

Previously thought to only proceed spontaneously, the decarboxylation of 2-oxo-4-hydroxy-4-carboxy--5-ureidoimidazoline (OHCU) has been recently been shown to be catalysed by this OHCU decarboxylase in Mus musculus (Mouse) [ ]. Homologues of this enzyme are found adjacent to and fused with uricase in a number of prokar...

[ "GO:0000255" ]

[ "allantoin metabolic process" ]

[ "biological_process" ]

1

[ "NCBIFAM" ]

[ "TIGR03164" ]

[ "UHCUDC" ]

[ 6060 ]

1

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

[ "4.1.1.97", "GenProp0688", "PWY-5691", "PWY-7394", "PWY-7849" ]

[ "EC:4.1.1.97", "GP:GenProp0688", "METACYC:PWY-5691", "METACYC:PWY-7394", "METACYC:PWY-7849" ]

5

[ "2o70", "2o73", "2o74", "2o8i", "5z5m" ]

5

[ "PUB00042841" ]

[ "16462750" ]

[ "Completing the uric acid degradation pathway through phylogenetic comparison of whole genomes." ]

[ 2006 ]

1

[ "IPR018020" ]

[]

1

0

1

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

[ 5276, 704, 41, 39 ]

4

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

[ 1, 1, 2, 2 ]

4

true

Domain

2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline decarboxylase, type 1

OHCU_decarboxylase-1

1

IPR017581

17,581

N-ATPase, AtpR subunit-like

AtpR-like

Family

862

false

Membrane protein with three predicted transmembrane segments, two of which contain conserved Arg residues. AtpR genes are found in the N-ATPase (archaeal-type F1-Fo-ATPase) operons and are predicted to interact with the conserved Glu/Asp residues in the c subunits, regulating the assembly and/or function of the membran...

[]

0

[ "PFAM", "NCBIFAM" ]

[ "PF12966", "TIGR03165" ]

[ "AtpR", "F1F0_chp_2" ]

[ 862, 396 ]

2

[]

0

[]

0

[ "PUB00076957" ]

[ "20472544" ]

[ "Characterization of the N-ATPase, a distinct, laterally transferred Na+-translocating form of the bacterial F-type membrane ATPase." ]

[ 2010 ]

1

[]

0

null

[ "Bacteria", "Methanomicrobia", "ecological metagenomes" ]

[ 810, 19, 33 ]

3

[]

0

true

Family

N-ATPase, AtpR subunit-like

AtpR-like

6

IPR017582

17,582

tRNA 2-selenouridine synthase

SelU

Family

7,112

false

tRNA 2-selenouridine synthase (SelU) is a monomeric enzyme involved in the post-transcriptional modification of uridine at the wobble position (U34) of tRNA\textsuperscript{Lys}, tRNA\textsuperscript{Glu}, and tRNA\textsuperscript{Gln}, where it catalyses the two-step conversion of 2-thiouridine (S2U-RNA) to 2-selenour...

[ "GO:0043828", "GO:0002098" ]

[ "tRNA 2-selenouridine synthase activity", "tRNA wobble uridine modification" ]

[ "molecular_function", "biological_process" ]

2

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

[ "MF_01622", "NF008751", "PTHR30401", "TIGR03167" ]

[ "tRNA_sel_U_synth", "PRK11784.1-3", "", "tRNA_sel_U_synt" ]

[ 2935, 3069, 7103, 6736 ]

4

[ "EC", "GP" ]

[ "2.9.1.3", "GenProp0692" ]

[ "EC:2.9.1.3", "GP:GenProp0692" ]

2

[ "3g5j" ]

1

[ "PUB00043071", "PUB00093754", "PUB00093755", "PUB00093756" ]

[ "14594807", "24971911", "22983156", "29862510" ]

[ "Functional diversity of the rhodanese homology domain: the Escherichia coli ybbB gene encodes a selenophosphate-dependent tRNA 2-selenouridine synthase.", "Transformation of a wobble 2-thiouridine to 2-selenouridine via S-geranyl-2-thiouridine as a possible cellular pathway.", "Discovery and biological charact...

[ 2004, 2014, 2012, 2018 ]

4

[]

0

null

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

[ 6744, 204, 80, 84 ]

4

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

tRNA 2-selenouridine synthase

SelU

8

IPR017583

17,583

Tagatose/fructose phosphokinase

Tagatose/fructose_Pkinase

Family

22,085

false

This entry represents a family of hexose kinases that includes the tagatose-6-kinases from the carbohydrate kinase PfkB family (LacC subfamily), 1-phosphofructokinases and 6-phosphofructokinases isozyme 2 from the carbohydrate kinase PfkB family. Tagatose-6-phosphate kinase ( ) is part of the tagatose-6-phosphate pathw...

[ "GO:0016773", "GO:0005975" ]

[ "phosphotransferase activity, alcohol group as acceptor", "carbohydrate metabolic process" ]

[ "molecular_function", "biological_process" ]

2

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

[ "PIRSF000535", "PTHR46566", "TIGR03168", "cd01164" ]

[ "1PFK/6PFK/LacC", "", "1-PFK", "FruK_PfkB_like" ]

[ 20782, 21271, 18759, 18369 ]

4

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

[ "2.7.1", "2.7.1.144", "GenProp0693", "GenProp1306", "GenProp1407", "PWY-7077", "PWY-7395" ]

[ "EC:2.7.1", "EC:2.7.1.144", "GP:GenProp0693", "GP:GenProp1306", "GP:GenProp1407", "METACYC:PWY-7077", "METACYC:PWY-7395" ]

7

[ "2abq", "2ajr", "2awd", "2f02", "2jg1", "2jg5", "2jgv", "2q5r", "3cqd", "3hic", "3ie7", "3jul", "3n1c", "3q1y", "3umo", "3ump", "3uqd", "3uqe", "6ilr", "6ils", "6ilt" ]

21

[ "PUB00060540" ]

[ "22493022" ]

[ "Fructose degradation in the haloarchaeon Haloferax volcanii involves a bacterial type phosphoenolpyruvate-dependent phosphotransferase system, fructose-1-phosphate kinase, and class II fructose-1,6-bisphosphate aldolase." ]

[ 2012 ]

1

[]

[ "IPR005926", "IPR022463" ]

0

2

0

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

[ 183, 21537, 187, 178 ]

4

[ "Escherichia coli (strain K12)" ]

[ 2 ]

1

true

Family

Tagatose/fructose phosphokinase

Tagatose/fructose_Pkinase

5

IPR017584

17,584

Pyridine nucleotide-disulphide oxidoreductase family protein, N-terminal

Pyridine_nucleo_diS_OxRdtase_N

Domain

1,450

false

Members of this entry include the N-terminal sequence regions of (probable) bifunctional proteins whose C-terminal sequences are SelD (selenide, water dikinase) the selenium donor protein necessary for selenium incorporation into protein (as selenocysteine), tRNA (as 2-selenouridine), or both. However, some members of ...

[]

0

[ "NCBIFAM" ]

[ "TIGR03169" ]

[ "Nterm_to_SelD" ]

[ 1450 ]

1

[]

0

[]

0

[]

0

[]

0

null

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

[ 1351, 85, 14 ]

3

[]

0

true

Domain

Pyridine nucleotide-disulphide oxidoreductase family protein, N-terminal

Pyridine_nucleo_diS_OxRdtase_N

8

IPR017585

17,585

Flagella basal body P-ring formation protein FlgA, SAF domain

SAF_FlgA

Domain

10,644

false

This entry describes a conserved C-terminal region of the flagellar basal body P-ring formation protein FlgA. FlgA, is required for P-ring assembly in bacterial flagella of taxa such as Salmonella enterica or Escherichia coli. It consists of two domains, a SAF domain and a β-barrel domain responsible for binding to Flg...

[]

0

[ "PFAM", "NCBIFAM" ]

[ "PF13144", "TIGR03170" ]

[ "ChapFlgA", "flgA_cterm" ]

[ 10641, 10023 ]

2

[ "GP" ]

[ "GenProp0881" ]

[ "GP:GenProp0881" ]

1

[ "3frn", "3tee", "3vjp", "3vki" ]

4

[ "PUB00089354" ]

[ "27273476" ]

[ "Structural flexibility of the periplasmic protein, FlgA, regulates flagellar P-ring assembly in Salmonella enterica." ]

[ 2016 ]

1

[ "IPR013974" ]

[]

1

0

1

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

[ 10478, 22, 144 ]

3

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Domain

Flagella basal body P-ring formation protein FlgA, SAF domain

SAF_FlgA

3

IPR017586

17,586

Rieske iron-sulphur protein SoxL2

Rieske_Fe-S_SoxL2

Family

42

false

This iron-sulphur protein is found in a contiguous genomic region with subunits of cytochrome b558/566, and appears to be part of a cytochrome bc1-analogous system [ ].

[]

0

[ "NCBIFAM" ]

[ "TIGR03171" ]

[ "soxL2" ]

[ 42 ]

1

[ "GP" ]

[ "GenProp0695" ]

[ "GP:GenProp0695" ]

1

[]

0

[ "PUB00042941" ]

[ "15632423" ]

[ "Respiratory gene clusters of Metallosphaera sedula - differential expression and transcriptional organization." ]

[ 2005 ]

1

[]

0

null

[ "Sulfolobaceae" ]

[ 42 ]

1

[]

0

true

Family

Rieske iron-sulphur protein SoxL2

Rieske_Fe-S_SoxL2

2

IPR017587

17,587

Selenium cofactor biosynthesis protein YqeC

YqeC

Family

1,805

false

This uncharacterised protein family includes YqeC from Escherichia coli. A phylogenetic profiling analysis shows correlation with SelD, the selenium donor protein, even in species where SelD contributes to neither selenocysteine nor selenouridine biosynthesis [ , ]. Instead, this family appears to mark a selenium-depen...

[]

0

[ "PFAM", "NCBIFAM" ]

[ "PF19842", "TIGR03172" ]

[ "YqeC", "" ]

[ 1805, 1781 ]

2

[ "GP" ]

[ "GenProp0726" ]

[ "GP:GenProp0726" ]

1

[]

0

[ "PUB00045880", "PUB00106731" ]

[ "18289380", "18510720" ]

[ "Orphan SelD proteins and selenium-dependent molybdenum hydroxylases.", "In silico identification of genes involved in selenium metabolism: evidence for a third selenium utilization trait." ]

[ 2008, 2008 ]

2

[]

0

null

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

[ 1475, 23, 272, 35 ]

4

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Selenium cofactor biosynthesis protein YqeC

YqeC

4

IPR017588

17,588

Uric acid permease UacT-like

UacT-like

Family

13,573

false

This family includes uric acid transporters such as UacT (YgfU) from Escherichia coli [ ], and PucK and PucJ from Bacillus subtilis [ ].

[ "GO:0022857", "GO:0015851", "GO:0016020" ]

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

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

3

[ "NCBIFAM" ]

[ "TIGR03173" ]

[ "pbuX" ]

[ 13573 ]

1

[ "GP", "GP" ]

[ "GenProp0696", "GenProp0698" ]

[ "GP:GenProp0696", "GP:GenProp0698" ]

2

[]

0

[ "PUB00016396", "PUB00071326" ]

[ "11344136", "22437829" ]

[ "Functional analysis of 14 genes that constitute the purine catabolic pathway in Bacillus subtilis and evidence for a novel regulon controlled by the PucR transcription activator.", "Substrate selectivity of YgfU, a uric acid transporter from Escherichia coli." ]

[ 2001, 2012 ]

2

[ "IPR006042" ]

[]

1

0

1

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

[ 13409, 4, 136, 24 ]

4

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Uric acid permease UacT-like

UacT-like

1

IPR017589

17,589

CRISPR associated protein Cas10d/Csc3

CRISPR-assoc_prot_Cas10d/Csc3

Family

276

false

This entry represents the type I-D Cas10d/Csc3 family of Cas proteins that are strictly associated with the Cyano subtype of CRISPR/Cas locus, found in several species of Cyanobacteria and several archaeal species. This family is designated Csc3 for CRISPR/Cas Subtype Cyano protein 3, as it is often the third gene upst...

[]

0

[ "NCBIFAM" ]

[ "TIGR03174" ]

[ "cas_Csc3" ]

[ 276 ]

1

[ "GP" ]

[ "GenProp0685" ]

[ "GP:GenProp0685" ]

1

[ "7sba", "7sbb" ]

2

[ "PUB00009737", "PUB00043286", "PUB00043287", "PUB00043288", "PUB00060621", "PUB00071890", "PUB00150950" ]

[ "11952905", "17442114", "17379808", "16545108", "21699496", "24459147", "35595728" ]

[ "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, 2022 ]

7

[]

0

null

[ "Archaea", "Bacteria", "hydrothermal vent metagenome" ]

[ 43, 232, 1 ]

3

[]

0

true

Family

CRISPR associated protein Cas10d/Csc3

CRISPR-assoc_prot_Cas10d/Csc3

4

IPR017590

17,590

Ureidoglycolate dehydrogenase

Ureidoglycolate_dehydrogenase

Family

1,105

false

This protein converts ureidoglycolate to oxalureate in the non-urea-forming catabolism of allantoin ( ). The pathway has been characterised in Escherichia coli [ ] and is observed in the genomes of Enterococcus faecalis (Streptococcus faecalis) and Bacillus licheniformis.

[]

0

[ "NCBIFAM" ]

[ "TIGR03175" ]

[ "AllD" ]

[ 1105 ]

1

[ "GP" ]

[ "GenProp0687" ]

[ "GP:GenProp0687" ]

1

[ "1xrh", "4fjs", "4fju", "4h8a" ]

4

[ "PUB00009609" ]

[ "10601204" ]

[ "Genetic analysis of a chromosomal region containing genes required for assimilation of allantoin nitrogen and linked glyoxylate metabolism in Escherichia coli." ]

[ 1999 ]

1

[ "IPR003767" ]

[]

1

0

1

[ "Bacteria", "bioreactor metagenome" ]

[ 1103, 2 ]

2

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Ureidoglycolate dehydrogenase

Ureidoglycolate_dehydrogenase

5

IPR017591

17,591

Allantoate amidohydrolase

Allantoate_amidohydrolase

Family

830

false

This protein catalyses the breakdown of allantoate [ ], first to ureidoglycine by hydrolysis and then decarboxylation of one of the two equivalent ureido groups. Ureidoglycine then spontaneously exchanges ammonia for water resulting in ureidoglycolate. This enzyme is an alternative to allantoicase ( ) which releases ur...

[ "GO:0030145", "GO:0042803", "GO:0047652", "GO:0000256", "GO:0009442" ]

[ "manganese ion binding", "protein homodimerization activity", "allantoate deiminase activity", "allantoin catabolic process", "allantoin assimilation pathway" ]

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

5

[ "NCBIFAM" ]

[ "TIGR03176" ]

[ "AllC" ]

[ 830 ]

1

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

[ "GenProp0686", "GenProp0687", "GenProp1326" ]

[ "GP:GenProp0686", "GP:GenProp0687", "GP:GenProp1326" ]

3

[ "1z2l", "2imo", "4pxd" ]

3

[ "PUB00009609" ]

[ "10601204" ]

[ "Genetic analysis of a chromosomal region containing genes required for assimilation of allantoin nitrogen and linked glyoxylate metabolism in Escherichia coli." ]

[ 1999 ]

1

[ "IPR010158" ]

[]

1

0

1

[ "Bacteria", "Spodoptera exigua", "bioreactor metagenome" ]

[ 828, 1, 1 ]

3

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Allantoate amidohydrolase

Allantoate_amidohydrolase

7

IPR017592

17,592

Pilus assembly, Flp-type CpaB

Pilus_assmbl_Flp-typ_CpaB

Family

9,371

false

Members of this protein family are the CpaB protein of Flp-type pilus assembly. Similar proteins include the FlgA protein of bacterial flagellum biosynthesis.

[]

0

[ "NCBIFAM" ]

[ "TIGR03177" ]

[ "pilus_cpaB" ]

[ 9371 ]

1

[]

0

[ "9gzr" ]

1

[]

0

[]

0

null

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

[ 9250, 11, 110 ]

3

[]

0

true

Family

Pilus assembly, Flp-type CpaB

Pilus_assmbl_Flp-typ_CpaB

3

IPR017593

17,593

Allantoinase

Family

6,963

false

This entry includes allantoinases mainly from bacteria and eukaryotes but also from some archaeal species. Allantoinase catalyses the conversion of allantoin (5-ureidohydantoin) to allantoic acid by hydrolytic cleavage of the five-member hydantoin ring [ , ]. The proteins in this family are all in the vicinity of other...

[ "GO:0004038", "GO:0008270", "GO:0050897", "GO:0000256" ]

[ "allantoinase activity", "zinc ion binding", "cobalt ion binding", "allantoin catabolic process" ]

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

4

[ "NCBIFAM" ]

[ "TIGR03178" ]

[ "allantoinase" ]

[ 6963 ]

1

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

[ "3.5.2.5", "GenProp0686", "GenProp0687", "GenProp1326", "GenProp1501", "PWY-5697", "PWY-5698" ]

[ "EC:3.5.2.5", "GP:GenProp0686", "GP:GenProp0687", "GP:GenProp1326", "GP:GenProp1501", "METACYC:PWY-5697", "METACYC:PWY-5698" ]

7

[ "1gkr", "3e74", "3hm7", "8hfd" ]

4

[ "PUB00009609", "PUB00054984" ]

[ "10601204", "11092864" ]

[ "Genetic analysis of a chromosomal region containing genes required for assimilation of allantoin nitrogen and linked glyoxylate metabolism in Escherichia coli.", "Functional expression and characterization of the two cyclic amidohydrolase enzymes, allantoinase and a novel phenylhydantoinase, from Escherichia col...

[ 1999, 2000 ]

2

[]

[ "IPR047604" ]

0

1

0

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

[ 84, 4866, 1987, 26 ]

4

[ "Arabidopsis thaliana", "Danio rerio", "Drosophila melanogaster", "Escherichia coli (strain K12)", "Oryza sativa subsp. japonica", "Saccharomyces cerevisiae (strain ATCC 204508 / S288c)", "Zea mays" ]

[ 6, 2, 2, 1, 1, 1, 9 ]

7

true

Family

Allantoinase

8

IPR017596

17,596

Pyruvate dehydrogenase E1 component subunit alpha/BCKADH E1-alpha

PdhA/BkdA

Family

10,326

false

This entry includes pyruvate dehydrogenase E1 component subunit alpha (PdhA) from Bacillus subtilis and 3-methyl-2-oxobutanoate dehydrogenase subunit alpha (BkdA) from Mycobacterium tuberculosis. The pyruvate dehydrogenase complex catalyses the overall conversion of pyruvate to acetyl-CoA and CO2. It contains multiple ...

[]

0

[ "NCBIFAM" ]

[ "TIGR03181" ]

[ "PDH_E1_alph_x" ]

[ 10326 ]

1

[ "EC" ]

[ "1.2.4.1" ]

[ "EC:1.2.4.1" ]

1

[ "1w85", "1w88", "3duf", "3dv0", "3dva" ]

5

[ "PUB00070840" ]

[ "21238944" ]

[ "Virulence of Mycobacterium tuberculosis depends on lipoamide dehydrogenase, a member of three multienzyme complexes." ]

[ 2011 ]

1

[]

0

null

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

[ 577, 9694, 6, 49 ]

4

[]

0

true

Family

Pyruvate dehydrogenase E1 component subunit alpha/BCKADH E1-alpha

PdhA/BkdA

2

IPR017597

17,597

Pyruvate dehydrogenase (acetyl-transferring) E1 component, alpha subunit, subgroup y

Pyrv_DH_E1_asu_subgrp-y

Family

13,130

false

Members of this protein family are the alpha subunit of the E1 component of pyruvate dehydrogenase (PDH) [ ]. This entry represents one branch of a larger family that E1-alpha proteins from 2-oxoisovalerate dehydrogenase, acetoin dehydrogenase, another PDH clade, etc. The pyruvate dehydrogenase complex catalyses the ov...

[ "GO:0004739", "GO:0006086", "GO:0043231" ]

[ "pyruvate dehydrogenase (acetyl-transferring) activity", "pyruvate decarboxylation to acetyl-CoA", "intracellular membrane-bounded organelle" ]

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

3

[ "NCBIFAM" ]

[ "TIGR03182" ]

[ "PDH_E1_alph_y" ]

[ 13130 ]

1

[ "EC", "GP", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACTOME", "REACT...

[ "1.2.4.1", "GenProp1536", "R-CEL-204174", "R-CEL-5362517", "R-CEL-9837999", "R-CEL-9861559", "R-CFA-204174", "R-CFA-5362517", "R-CFA-9837999", "R-CFA-9861559", "R-DDI-9861559", "R-HSA-204174", "R-HSA-5362517", "R-HSA-9837999", "R-HSA-9861559", "R-MMU-204174", "R-MMU-5362517", "R-MM...

[ "EC:1.2.4.1", "GP:GenProp1536", "REACTOME:R-CEL-204174", "REACTOME:R-CEL-5362517", "REACTOME:R-CEL-9837999", "REACTOME:R-CEL-9861559", "REACTOME:R-CFA-204174", "REACTOME:R-CFA-5362517", "REACTOME:R-CFA-9837999", "REACTOME:R-CFA-9861559", "REACTOME:R-DDI-9861559", "REACTOME:R-HSA-204174", "RE...

30

[ "1ni4", "2ozl", "3exe", "3exf", "3exg", "3exh", "3exi", "6cer", "6cfo" ]

9

[ "PUB00044722" ]

[ "15313220" ]

[ "Function of several critical amino acids in human pyruvate dehydrogenase revealed by its structure." ]

[ 2004 ]

1

[]

0

null

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

[ 6966, 6107, 57 ]

3

[ "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...

[ 11, 2, 7, 4, 4, 4, 1, 4, 8, 1, 1, 18 ]

12

true

Family

Pyruvate dehydrogenase (acetyl-transferring) E1 component, alpha subunit, subgroup y

Pyrv_DH_E1_asu_subgrp-y

8

IPR017598

17,598

DNA phosphorothioation system sulfurtransferase DndC

SulphurTrfase_DndC

Family

1,206

false

This entry describes the DndC protein from the dnd (degradation during electrophoresis) operon. The dnd phenotype reflects a sulphur-containing modification to DNA [ , ]. The operon is sparsely and sporadically distributed among bacteria. The examples known so far include Actinobacteria, Firmicutes, Gammaproteobacteria...

[]

0

[ "NCBIFAM" ]

[ "TIGR03183" ]

[ "DNA_S_dndC" ]

[ 1206 ]

1

[ "GP" ]

[ "GenProp0701" ]

[ "GP:GenProp0701" ]

1

[]

0

[ "PUB00042946", "PUB00088241" ]

[ "16102010", "26539172" ]

[ "A novel DNA modification by sulphur.", "Interactions of Dnd proteins involved in bacterial DNA phosphorothioate modification." ]

[ 2005, 2015 ]

2

[]

0

null

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

[ 24, 1163, 4, 15 ]

4

[]

0

true

Family

DNA phosphorothioation system sulfurtransferase DndC

SulphurTrfase_DndC

3

IPR017599

17,599

DNA sulphur modification protein DndD

DNA_S_DndD

Family

1,218

false

This entry describes the DndD protein encoded by an operon associated with a sulphur-containing modification to DNA [ ]. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndD is described as a putative ATPase. The small number of examples known so far include species from a...

[]

0

[ "NCBIFAM" ]

[ "TIGR03185" ]

[ "DNA_S_dndD" ]

[ 1218 ]

1

[ "GP" ]

[ "GenProp0701" ]

[ "GP:GenProp0701" ]

1

[]

0

[ "PUB00042946" ]

[ "16102010" ]

[ "A novel DNA modification by sulphur." ]

[ 2005 ]

1

[]

0

null

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

[ 27, 1176, 4, 11 ]

4

[]

0

true

Family

DNA sulphur modification protein DndD

DNA_S_DndD

5

IPR017600

17,600

Alpha-ketoglutarate dehydrogenase

Alpha-ketoglut_DH

Family

854

false

Several bacterial species have a paralog to homodimeric form of the pyruvate dehydrogenase E1 component (see model ), often encoded next to L-methionine gamma-lyase gene (mdeA). The member from a strain of Pseudomonas putida was shown to act on alpha-ketobutyrate, which is produced by MdeA. This model serves as an exce...

[]

0

[ "NCBIFAM" ]

[ "TIGR03186" ]

[ "AKGDH_not_PDH" ]

[ 854 ]

1

[]

0

[]

0

[]

0

[ "IPR004660" ]

[]

1

0

1

[ "Pseudomonadota", "plant metagenome" ]

[ 846, 8 ]

2

[]

0

true

Family

Alpha-ketoglutarate dehydrogenase

Alpha-ketoglut_DH

5

IPR017601

17,601

DGQHR-containing domain

DGQHR-contain_dom

Domain

3,144

false

This highly divergent, uncharacterised domain has several absolutely conserved residues, including a QR pair and FxxxN motif. Its most striking feature, however, is a near invariant pentapeptide motif DGQHR. While the function is unknown, members occur in contexts that suggest extensive lateral gene transfer (LGT), and...

[]

0

[ "NCBIFAM" ]

[ "TIGR03187" ]

[ "DGQHR" ]

[ 3144 ]

1

[]

0

[]

0

[]

0

[]

0

null

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

[ 22, 3052, 4, 5, 61 ]

5

[]

0

true

Domain

DGQHR-containing domain

DGQHR-contain_dom

3