LiteFold/InterPro · Datasets at Hugging Face

IPR007375

7,375

Sarcosine oxidase, gamma subunit

SoxG

Family

5,034

false

Sarcosine oxidase is a hetero-tetrameric enzyme that contains both covalently bound FMN and non-covalently bound FAD and NAD + . This enzyme catalyzes the oxidative demethylation of sarcosine to yield glycine, H 2 O 2 , and 5,10-CH2-tetrahydrofolate (H4folate) in a reaction requiring H4folate and O 2 [ , ].

[]

0

[ "PFAM" ]

[ "PF04268" ]

[ "SoxG" ]

[ 5034 ]

1

[ "EC", "METACYC" ]

[ "1.5.3.24", "PWY-3661" ]

[ "EC:1.5.3.24", "METACYC:PWY-3661" ]

2

[ "1vrq", "1x31", "2gag", "2gah", "3ad7", "3ad8", "3ad9", "3ada" ]

8

[ "PUB00009924", "PUB00009925" ]

[ "11330998", "7543100" ]

[ "Organization of the multiple coenzymes and subunits and role of the covalent flavin link in the complex heterotetrameric sarcosine oxidase.", "Sequence analysis of sarcosine oxidase and nearby genes reveals homologies with key enzymes of folate one-carbon metabolism." ]

[ 2001, 1995 ]

2

[]

[ "IPR006280" ]

0

1

0

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

[ 4965, 3, 66 ]

3

[]

0

true

Family

Sarcosine oxidase, gamma subunit

SoxG

6

IPR007376

7,376

dsDNA mimic, putative

dsDNA_mimic_put

Family

1,786

false

This entry represents hypothetical proteins such as HI1450, which is believed to act as a putative dsDNA mimic. HI1450 is an acidic protein with a core structure consisting of α(2)-β(4), where the α-helices are packed against the side of an anti-parallel 4-stranded β meander. As such, it has some similarity to the dsDN...

[]

0

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

[ "MF_00680", "NF003469", "PF04269", "PIRSF004916" ]

[ "UPF0263", "PRK05094.1", "DUF440", "UCP004916" ]

[ 1432, 1688, 1786, 1620 ]

4

[]

0

[ "1nnv" ]

1

[ "PUB00029155", "PUB00104164" ]

[ "14747986", "15883182" ]

[ "Solution structure of the highly acidic protein HI1450 from Haemophilus influenzae, a putative double-stranded DNA mimic.", "HU-alpha binds to the putative double-stranded DNA mimic HI1450 from Haemophilus influenzae." ]

[ 2004, 2005 ]

2

[]

0

null

[ "Bacteria", "Tagetes erecta", "marine sediment metagenome" ]

[ 1783, 1, 2 ]

3

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

dsDNA mimic, putative

dsDNA_mimic_put

3

IPR007378

7,378

Tic22-like

Family

2,758

false

Chloroplast function requires the import of nuclear encoded proteins from the cytoplasm across the chloroplast double membrane. This is accompished by two protein complexes, the Toc complex located at the outer membrane and the Tic complex loacted at the inner membrane [ ]. The Toc complex recognises specific proteins ...

[ "GO:0015031" ]

[ "protein transport" ]

[ "biological_process" ]

1

[ "PFAM", "PANTHER" ]

[ "PF04278", "PTHR33926" ]

[ "Tic22", "" ]

[ 2588, 2094 ]

2

[]

0

[ "4e6z", "4ev1", "8xks", "8xqw", "8xqx" ]

5

[ "PUB00034696", "PUB00087188" ]

[ "11315189", "25174336" ]

[ "Molecular biology of chloroplast biogenesis: gene expression, protein import and intraorganellar sorting.", "New insights into the mechanism of chloroplast protein import and its integration with protein quality control, organelle biogenesis and development." ]

[ 2001, 2015 ]

2

[]

[ "IPR005692" ]

0

1

0

[ "Bacteria", "Eukaryota" ]

[ 352, 2406 ]

2

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

[ 11, 9, 14 ]

3

true

Family

Tic22-like

1

IPR007379

7,379

Tim44-like domain

Tim44-like_dom

Domain

17,631

false

Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane [ ]. Tim44 is thought to bind phospholipids of the mitochondrial inner membrane both by electrostatic interactions and by penetrating the polar head group region [ ]. This...

[]

0

[ "PFAM", "SMART" ]

[ "PF04280", "SM00978" ]

[ "Tim44", "Tim44" ]

[ 17419, 16702 ]

2

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

[ "R-CEL-5389840", "R-CEL-5419276", "R-CEL-9937383", "R-DME-5389840", "R-DME-5419276", "R-DME-9937383", "R-HSA-1268020", "R-HSA-5368286", "R-HSA-5389840", "R-HSA-5419276", "R-HSA-9937383", "R-MMU-5389840", "R-MMU-5419276", "R-MMU-9937383" ]

[ "REACTOME:R-CEL-5389840", "REACTOME:R-CEL-5419276", "REACTOME:R-CEL-9937383", "REACTOME:R-DME-5389840", "REACTOME:R-DME-5419276", "REACTOME:R-DME-9937383", "REACTOME:R-HSA-1268020", "REACTOME:R-HSA-5368286", "REACTOME:R-HSA-5389840", "REACTOME:R-HSA-5419276", "REACTOME:R-HSA-9937383", "REACTOM...

14

[ "2cw9", "2fxt", "3j7y", "3j9m", "3qk9", "4ce4", "4v1a", "5aj4", "5ool", "5oom", "6gaw", "6gb2", "6i9r", "6nu2", "6nu3", "6vlz", "6vmi", "6ydp", "6ydw", "6zm5", "6zm6", "6zs9", "6zsa", "6zsb", "6zsc", "6zsd", "6zse", "6zsg", "7a5f", "7a5g", "7a5h", "7a5i"...

97

[ "PUB00009930", "PUB00040854" ]

[ "10430866", "16647716" ]

[ "Domain structure and lipid interaction of recombinant yeast Tim44.", "Crystal structure of yeast mitochondrial peripheral membrane protein Tim44p C-terminal domain." ]

[ 1999, 2006 ]

2

[]

0

null

[ "Archaea", "Bacteria", "Eukaryota", "unclassified sequences", "uncultured Caudovirales phage" ]

[ 2, 8694, 8855, 79, 1 ]

5

[ "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...

[ 15, 2, 4, 7, 10, 4, 1, 4, 8, 1, 1, 12 ]

12

true

Domain

Tim44-like domain

Tim44-like_dom

1

IPR007380

7,380

Domain of unknown function DUF438

DUF438

Domain

1,912

false

This is a a group of uncharacterised proteins.

[]

0

[ "PFAM" ]

[ "PF04282" ]

[ "DUF438" ]

[ 1912 ]

1

[]

0

[]

0

[]

0

[]

0

null

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

[ 80, 1792, 40 ]

3

[]

0

true

Domain

Domain of unknown function DUF438

DUF438

5

IPR007381

7,381

Taxis protein CheF1/F2

CheF1/F2

Family

756

false

This protein family represents Taxis protein CheF1/F2 from Halobacterium salinarum and similar proteins found in archaea. CheF1/2 are archaea-specific adaptor proteins that link the bacterial-like chemotaxis signal transduction system to the archaeal motility machinery [ , ]. CheF1 interact with the chemotaxis proteins...

[ "GO:0006935" ]

[ "chemotaxis" ]

[ "biological_process" ]

1

[ "PFAM", "PIRSF", "PANTHER" ]

[ "PF04283", "PIRSF026802", "PTHR42201" ]

[ "CheF-arch", "UCP026802", "" ]

[ 748, 500, 741 ]

3

[]

0

[ "7od9", "7ovp" ]

2

[ "PUB00058199", "PUB00100176", "PUB00100177" ]

[ "19291314", "29358409", "31475924" ]

[ "Identification of Archaea-specific chemotaxis proteins which interact with the flagellar apparatus.", "Structure and function of the archaeal response regulator CheY.", "Structure of the archaeal chemotaxis protein CheY in a domain-swapped dimeric conformation." ]

[ 2009, 2018, 2019 ]

3

[]

0

null

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

[ 2, 751, 3 ]

3

[]

0

true

Family

Taxis protein CheF1/F2

CheF1/F2

4

IPR007382

7,382

Uncharacterised protein family UPF0756, transmembrame

UPF0756_TM

Family

3,516

false

This entry contains proteins of unknown function. They are predicted to be transmembrane proteins with 4 TM domains.

[]

0

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

[ "MF_01874", "PF04284", "PTHR38452" ]

[ "UPF0756", "DUF441", "" ]

[ 3375, 3511, 3501 ]

3

[]

0

[]

0

[]

0

[]

0

null

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

[ 3504, 4, 8 ]

3

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Uncharacterised protein family UPF0756, transmembrame

UPF0756_TM

8

IPR007383

7,383

Protein of unknown function DUF445

DUF445

Family

11,904

false

This entry represents a large family of proteins with unknown function. They are predicted to be transmembrane (TM) proteins with 2 or 3 TM domains.

[]

0

[ "PFAM" ]

[ "PF04286" ]

[ "DUF445" ]

[ 11904 ]

1

[]

0

[]

0

[]

0

[]

[ "IPR016991" ]

0

1

0

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

[ 17, 11688, 117, 82 ]

4

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Protein of unknown function DUF445

DUF445

8

IPR007384

7,384

Protein of unknown function UCP006257

UCP006257

Family

3,674

false

This family of uncharacterised conserved proteins includes YqcC from Escherichia coli.

[]

0

[ "PIRSF", "PANTHER" ]

[ "PIRSF006257", "PTHR39586" ]

[ "UCP006257", "" ]

[ 3270, 3674 ]

2

[]

0

[ "2hgk" ]

1

[]

0

[]

0

null

[ "Bacteria", "Puccinia triticina (isolate 1-1 / race 1 (BBBD))", "metagenomes" ]

[ 3661, 1, 12 ]

3

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Protein of unknown function UCP006257

UCP006257

2

IPR007385

7,385

Prokaryotic chromosome segregation/condensation protein MukE

Scp_MukE

Family

1,844

false

MukE is involved in the segregation and condensation of prokaryotic chromosomes. MukE along with MukF ( ) interact with MukB ( ) in vivo forming a complex, which is required for chromosome condensation and segregation in Escherichia coli [ ]. The Muk complex appears to be similar to the SMC-ScpA-ScpB complex in other p...

[ "GO:0007059", "GO:0030261", "GO:0005737" ]

[ "chromosome segregation", "chromosome condensation", "cytoplasm" ]

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

3

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

[ "MF_01802", "NF003602", "PF04288" ]

[ "MukE", "PRK05256.1", "MukE" ]

[ 1617, 1767, 1844 ]

3

[ "GP" ]

[ "GenProp1180" ]

[ "GP:GenProp1180" ]

1

[ "3euh", "3euk", "3rpu", "7nyw", "7nyx", "7nyy", "7nyz", "7nz0", "7nz2", "7nz3", "7nz4", "7v8p", "9gm6", "9gm7", "9gm8", "9gm9", "9gma", "9gmb", "9gmd" ]

19

[ "PUB00015249", "PUB00015251" ]

[ "12065423", "10545099" ]

[ "Cell cycle-dependent localization of two novel prokaryotic chromosome segregation and condensation proteins in Bacillus subtilis that interact with SMC protein.", "Complex formation of MukB, MukE and MukF proteins involved in chromosome partitioning in Escherichia coli." ]

[ 2002, 1999 ]

2

[]

0

null

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

[ 1839, 2, 3 ]

3

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Prokaryotic chromosome segregation/condensation protein MukE

Scp_MukE

1

IPR007386

7,386

DUF447, N-terminal domain

DUF447_N

Domain

1,460

false

This entry represents a domain found N-terminal in archaeal and bacterial proteins of unknown function. It adopts an FMN-binding split β-barrel structure and binds to flavin mononucleotide (FMN) . This domain is found N-terminal to .

[]

0

[ "PFAM" ]

[ "PF04289" ]

[ "DUF447_N" ]

[ 1460 ]

1

[]

0

[ "2iml", "2nr4", "2ptf", "3b5m" ]

4

[]

0

[]

0

null

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

[ 732, 697, 2, 29 ]

4

[]

0

true

Domain

DUF447, N-terminal domain

DUF447_N

4

IPR007387

7,387

TRAP transporter, small membrane protein DctQ

TRAP_DctQ

Family

46,080

false

The tripartite ATP-independent periplasmic (TRAP) transporters are substrate-binding protein (SBP)-dependent secondary transporters ubiquitous in prokaryotes, but absent from eukaryotes. They are comprised of an SBP of the DctP or TAXI families and two integral membrane proteins of unequal sizes that form the DctQ and ...

[]

0

[ "PANTHER" ]

[ "PTHR35011" ]

[ "" ]

[ 46080 ]

1

[ "GP", "GP" ]

[ "GenProp0176", "GenProp0714" ]

[ "GP:GenProp0176", "GP:GenProp0714" ]

2

[ "7qha", "8b01" ]

2

[ "PUB00009932", "PUB00078592" ]

[ "10627041", "20584082" ]

[ "TRAP transporters: an ancient family of extracytoplasmic solute-receptor-dependent secondary active transporters.", "Tripartite ATP-independent periplasmic (TRAP) transporters in bacteria and archaea." ]

[ 1999, 2011 ]

2

[]

0

null

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

[ 98, 45138, 16, 828 ]

4

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

TRAP transporter, small membrane protein DctQ

TRAP_DctQ

8

IPR007390

7,390

Sporulation stage V, protein R

Spore_V_R

Family

8,206

false

One of the family members is Bacillus subtilis stage V sporulation protein R, which is involved in spore cortex formation [ ]. Stage V sporulation protein R is involved in spore cortex formation [ ]. Little is known about cortex biosynthesis, except that it depends on several sigma E controlled genes, including spoVR [...

[]

0

[ "PANTHER" ]

[ "PTHR30029" ]

[ "" ]

[ 8206 ]

1

[]

0

[]

0

[ "PUB00009937", "PUB00010122", "PUB00093610" ]

[ "8144469", "8982457", "29769716" ]

[ "Cloning and characterization of spoVR, a gene from Bacillus subtilis involved in spore cortex formation.", "Molecular genetics of sporulation in Bacillus subtilis.", "Mutant phenotypes for thousands of bacterial genes of unknown function." ]

[ 1994, 1996, 2018 ]

3

[]

[ "IPR057270" ]

0

1

0

[ "Archaea", "Bacteria", "Eukaryota", "unclassified sequences", "uncultured marine phage" ]

[ 305, 7821, 16, 63, 1 ]

5

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Sporulation stage V, protein R

Spore_V_R

2

IPR007392

7,392

D-galactarate/Altronate dehydratase, second domain

GD_AH_second

Domain

14,529

false

This entry represents the middle domain of D-galactarate dehydratase (GarD, ) [ ] and altronate dehydratase ( ) [ ]. When purified, both enzymes are catalytically inactive in the absence of added Fe 2+ , Mn 2+ , and beta-mercaptoethanol. Synergistic activation of altronate hydrolase activity is seen in the presence of ...

[ "GO:0016829" ]

[ "lyase activity" ]

[ "molecular_function" ]

1

[ "PFAM" ]

[ "PF04295" ]

[ "GD_AH_second" ]

[ 14529 ]

1

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

[ "GenProp0714", "GenProp0715", "GenProp1636" ]

[ "GP:GenProp0714", "GP:GenProp0715", "GP:GenProp1636" ]

3

[ "6u7l" ]

1

[ "PUB00009934", "PUB00009935", "PUB00009936", "PUB00076466", "PUB00095186" ]

[ "3038546", "9579062", "9772162", "20007648", "31811683" ]

[ "The role of iron in the activation of mannonic and altronic acid hydratases, two Fe-requiring hydro-lyases.", "A 35.7 kb DNA fragment from the Bacillus subtilis chromosome containing a putative 12.3 kb operon involved in hexuronate catabolism and a perfectly symmetrical hypothetical catabolite-responsive element...

[ 1987, 1998, 1998, 2010, 2020 ]

5

[]

0

null

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

[ 192, 14091, 46, 200 ]

4

[ "Arabidopsis thaliana", "Escherichia coli (strain K12)" ]

[ 1, 2 ]

2

true

Domain

D-galactarate/Altronate dehydratase, second domain

GD_AH_second

3

IPR007393

7,393

YlxR domain

YlxR_dom

Domain

12,155

false

This entry represents a domain found in YlxR from Bacillus subtilis, its homologue SP0554 from Streptococcus pneumoniae ( ) and in other bacterial proteins. YlxR regulate metabolic gene expression [ , ]. SP0554 revealed an α+β fold with a large positively charged patch on one side of the protein, that could have evolve...

[]

0

[ "PFAM" ]

[ "PF04296" ]

[ "YlxR" ]

[ 12155 ]

1

[]

0

[ "1g2r" ]

1

[ "PUB00028535", "PUB00101021", "PUB00101022" ]

[ "11679764", "30355672", "32983026" ]

[ "Streptococcus pneumonia YlxR at 1.35 A shows a putative new fold.", "Newly Identified Nucleoid-Associated-Like Protein YlxR Regulates Metabolic Gene Expression in Bacillus subtilis.", "<i>Bacillus subtilis</i> Nucleoid-Associated Protein YlxR Is Involved in Bimodal Expression of the Fructoselysine Utilization ...

[ 2001, 2018, 2020 ]

3

[]

0

null

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

[ 11972, 25, 158 ]

3

[]

0

true

Domain

YlxR domain

YlxR_dom

9

IPR007394

7,394

Putative helix-turn-helix protein, YlxM/p13-like

UPF0122

Family

5,116

false

Members of this family are predicted to contain a helix-turn-helix motif, for example residues 37-55 in Mycoplasma mycoides p13 ( ). Genes encoding family members are often part of operons that encode components of the SRP pathway, and this protein may regulate the expression of an operon related to the SRP pathway [ ]...

[]

0

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

[ "MF_00245", "PF04297", "PTHR40083" ]

[ "UPF0122", "UPF0122", "" ]

[ 4643, 5116, 4821 ]

3

[]

0

[ "1s7o", "1xsv" ]

2

[ "PUB00009943" ]

[ "9070906" ]

[ "A 13-kDa protein with a helix-turn-helix motif is encoded by bacterial operons related to the SRP pathway." ]

[ 1997 ]

1

[]

0

null

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

[ 4, 5042, 8, 11, 51 ]

5

[]

0

true

Family

Putative helix-turn-helix protein, YlxM/p13-like

UPF0122

3

IPR007395

7,395

Putative neutral zinc metallopeptidase

Zn_peptidase_2

Family

7,027

false

Members of this family of bacterial proteins are described as hypothetical proteins or zinc-dependent proteases. The majority have a HExxH zinc-binding motif characteristic of neutral zinc metallopeptidases, however there is no evidence to support their function as metallopeptidases.

[]

0

[ "PFAM", "PANTHER" ]

[ "PF04298", "PTHR36434" ]

[ "Zn_peptidase_2", "" ]

[ 7027, 6985 ]

2

[]

0

[]

0

[]

0

[]

0

null

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

[ 6896, 7, 124 ]

3

[]

0

true

Family

Putative neutral zinc metallopeptidase

Zn_peptidase_2

7

IPR007396

7,396

Transcriptional regulator PAI 2-type

TR_PAI2-type

Family

11,367

false

In Bacillus subtilis, family member , PAI 2, is involved in the negative regulation of protease synthesis and sporulation [ ]. Its structure has been solved [ ].

[]

0

[ "PFAM", "PIRSF", "PANTHER" ]

[ "PF04299", "PIRSF010372", "PTHR35802" ]

[ "FMN_bind_2", "PaiB", "" ]

[ 11342, 9724, 11115 ]

3

[]

0

[ "2ol5", "9ebk", "9ebm", "9jn4", "9jn5", "9jn6", "9kea" ]

7

[ "PUB00009944", "PUB00071245" ]

[ "2108124", "21633969" ]

[ "A novel Bacillus subtilis gene involved in negative control of sporulation and degradative-enzyme production.", "Crystal structure of the novel PaiB transcriptional regulator from Geobacillus stearothermophilus." ]

[ 1990, 2011 ]

2

[]

0

null

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

[ 9697, 1562, 9, 99 ]

4

[ "Saccharomyces cerevisiae (strain ATCC 204508 / S288c)" ]

[ 1 ]

1

true

Family

Transcriptional regulator PAI 2-type

TR_PAI2-type

9

IPR007397

7,397

F-box associated (FBA) domain

F-box-assoc_dom

Domain

4,717

false

F-box proteins have a bipartite structure: they contain a carboxy-terminal domain that interacts with substrates and a 42-48 amino-acid F-box domain which binds to the protein Skp1. A subset of F-box proteins is characterised by a ~180-residue carboxy-terminal region, which has been called the F-box-associated (FBA) do...

[]

0

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

[ "PF04300", "PS51114", "SM01198" ]

[ "FBA", "FBA", "FBA" ]

[ 4569, 4629, 4511 ]

3

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

[ "PDOC51114", "R-BTA-8951664", "R-BTA-983168", "R-HSA-390471", "R-HSA-8951664", "R-HSA-983168", "R-MMU-8951664", "R-MMU-983168", "R-RNO-8951664", "R-RNO-983168" ]

[ "PROSITEDOC:PDOC51114", "REACTOME:R-BTA-8951664", "REACTOME:R-BTA-983168", "REACTOME:R-HSA-390471", "REACTOME:R-HSA-8951664", "REACTOME:R-HSA-983168", "REACTOME:R-MMU-8951664", "REACTOME:R-MMU-983168", "REACTOME:R-RNO-8951664", "REACTOME:R-RNO-983168" ]

10

[ "1umh", "1umi", "2e31", "2e32", "2e33", "2rj2", "3wso", "5b4n", "8zuh" ]

9

[ "PUB00009973", "PUB00018546", "PUB00018547", "PUB00018548", "PUB00018549" ]

[ "10531037", "12383498", "11847564", "12939278", "14990996" ]

[ "A family of mammalian F-box proteins.", "A new subfamily of structurally related human F-box proteins.", "The antigen receptor (NCCRP-1) on catfish and zebrafish nonspecific cytotoxic cells belongs to a new gene family characterized by an F-box-associated domain.", "Fbs2 is a new member of the E3 ubiquitin l...

[ 1999, 2002, 2002, 2003, 2004 ]

5

[]

0

null

[ "Bacteria", "Eukaryota", "Halovivax asiaticus JCM 14624", "metagenomes" ]

[ 62, 4650, 1, 4 ]

4

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

[ 1, 35, 22, 23, 27 ]

5

true

Domain

F-box associated (FBA) domain

F-box-assoc_dom

4

IPR007398

7,398

Pimeloyl-ACP methyl esterase BioG

BioG

Family

976

false

This protein family includes Pimeloyl-ACP methyl esterase BioG from Haemophilus influenzae and similar bacterial proteins. This enzyme is involved in the biosynthesis of pymeloyl-ACP and, hence, in biotin biosynthesis. It is organised into a a core domain formed by a seven-stranded β-sheet and a lid domain consisting o...

[]

0

[ "PFAM" ]

[ "PF04301" ]

[ "BioG" ]

[ 976 ]

1

[]

0

[ "5gng", "5h3b" ]

2

[ "PUB00100663" ]

[ "27933801" ]

[ "An Atypical α/β-Hydrolase Fold Revealed in the Crystal Structure of Pimeloyl-Acyl Carrier Protein Methyl Esterase BioG from Haemophilus influenzae." ]

[ 2016 ]

1

[]

0

null

[ "Bacteria", "Trichuris trichiura", "unclassified sequences" ]

[ 967, 1, 8 ]

3

[]

0

true

Family

Pimeloyl-ACP methyl esterase BioG

BioG

5

IPR007400

7,400

PrpF-like

Family

11,205

false

PrpF is a protein found in the 2-methylcitrate pathway. It is structurally similar to DAP epimerase and proline racemase. This protein is an aconitate- isomerise converting trans-aconitate to cis-aconitate [ , ].

[]

0

[ "PFAM", "PANTHER" ]

[ "PF04303", "PTHR43709" ]

[ "PrpF", "" ]

[ 11182, 11139 ]

2

[]

0

[ "2h9f", "2pvz", "2pw0", "3g7k", "5k87", "6otv", "6p3h", "6p3j", "6p3k" ]

9

[ "PUB00044740", "PUB00083219" ]

[ "17567742", "26639528" ]

[ "The three-dimensional crystal structure of the PrpF protein of Shewanella oneidensis complexed with trans-aconitate: insights into its biological function.", "Ustilago maydis produces itaconic acid via the unusual intermediate trans-aconitate." ]

[ 2007, 2016 ]

2

[]

[ "IPR012709", "IPR047687" ]

0

2

0

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

[ 38, 9148, 1949, 70 ]

4

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

PrpF-like

2

IPR007401

7,401

Protein of unknown function DUF454

DUF454

Family

10,212

false

This entry includes YbaN from Escherichia coli. It is an inner membrane protein.

[]

0

[ "PFAM", "PIRSF", "PANTHER" ]

[ "PF04304", "PIRSF016789", "PTHR35813" ]

[ "DUF454", "DUF454", "" ]

[ 10212, 8438, 10082 ]

3

[]

0

[]

0

[]

0

[]

0

null

[ "Archaea", "Bacteria", "Eukaryota", "unclassified sequences", "uncultured Caudovirales phage" ]

[ 53, 10018, 8, 131, 2 ]

5

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Protein of unknown function DUF454

DUF454

2

IPR007403

7,403

Protein of unknown function DUF456

DUF456

Family

6,948

false

This is a family of putative membrane proteins.

[]

0

[ "PFAM" ]

[ "PF04306" ]

[ "DUF456" ]

[ 6948 ]

1

[]

0

[]

0

[]

0

[]

0

null

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

[ 296, 6579, 2, 71 ]

4

[]

0

true

Family

Protein of unknown function DUF456

DUF456

3

IPR007404

7,404

YdjM inner membrane

YdjM-like

Family

19,847

false

This is a family of putative LexA-binding proteins. Members are predicted to be membrane-bound metal-dependent hydrolases that may be acting as phospholipases. It is a member of the SOS network, that rescues cells from UV and other DNA-damage. Expression of YdjM is regulated by LexA [ , ].

[]

0

[ "PFAM" ]

[ "PF04307" ]

[ "YdjM" ]

[ 19847 ]

1

[]

0

[]

0

[ "PUB00075708", "PUB00155923" ]

[ "22958895", "10760155" ]

[ "A phylogenomic analysis of Escherichia coli / Shigella group: implications of genomic features associated with pathogenicity and ecological adaptation.", "Identification of additional genes belonging to the LexA regulon in Escherichia coli." ]

[ 2012, 2000 ]

2

[]

[ "IPR016756", "IPR016956" ]

0

2

0

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

[ 3245, 16243, 5, 169, 185 ]

5

[ "Escherichia coli (strain K12)" ]

[ 2 ]

1

true

Family

YdjM inner membrane

YdjM-like

9

IPR007405

7,405

Bacteriophage KVP40, Orf299

Phage_KVP40_Orf299

Family

2,083

false

This entry is represented by Bacteriophage KVP40, Orf299. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This is a family of uncharacterised, mainly bacterial, proteins. While the functions of these proteins are unknown, an analysis has suggested that they may...

[]

0

[ "PFAM", "PANTHER" ]

[ "PF04308", "PTHR39961" ]

[ "RNaseH_like", "" ]

[ 2082, 2070 ]

2

[]

0

[]

0

[ "PUB00020735" ]

[ "16165328" ]

[ "Bacillus subtilis YkuK protein is distantly related to RNase H." ]

[ 2005 ]

1

[]

0

null

[ "Bacteria", "Eukaryota", "Viruses", "candidate division MSBL1 archaeon SCGC-AAA382N08", "ecological metagenomes" ]

[ 2021, 19, 27, 1, 15 ]

5

[]

0

true

Family

Bacteriophage KVP40, Orf299

Phage_KVP40_Orf299

1

IPR007406

7,406

MukB, N-terminal domain

MukB_N_dom

Domain

2,687

false

This is the N-terminal region of MukB. MukB is involved in the segregation and condensation of prokaryotic chromosomes. MukE ( ) along with MukF ( ) interact with MukB in vivo forming a complex, which is required for chromosome condensation and segregation in Escherichia coli [ ]. The Muk complex appears to be similar ...

[ "GO:0003677", "GO:0005524", "GO:0007059", "GO:0030261", "GO:0009295" ]

[ "DNA binding", "ATP binding", "chromosome segregation", "chromosome condensation", "nucleoid" ]

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

5

[ "PFAM" ]

[ "PF04310" ]

[ "MukB" ]

[ 2687 ]

1

[]

0

[ "1qhl", "3euj", "3euk", "7nyw", "7nyx", "7nyy", "7nyz", "7nz0", "7nz2", "7nz3", "7nz4", "9gm6", "9gm7", "9gm8", "9gm9", "9gma" ]

16

[ "PUB00009946", "PUB00015249", "PUB00015251" ]

[ "10545328", "12065423", "10545099" ]

[ "Crystal structure of the N-terminal domain of MukB: a protein involved in chromosome partitioning.", "Cell cycle-dependent localization of two novel prokaryotic chromosome segregation and condensation proteins in Bacillus subtilis that interact with SMC protein.", "Complex formation of MukB, MukE and MukF prot...

[ 1999, 2002, 1999 ]

3

[]

0

null

[ "Bacteria", "Opisthokonta", "human gut metagenome" ]

[ 2683, 3, 1 ]

3

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Domain

MukB, N-terminal domain

MukB_N_dom

1

IPR007407

7,407

Protein of unknown function DUF459

DUF459

Family

2,250

false

This is a putative periplasmic protein and a member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-As...

[]

0

[ "PFAM", "CDD" ]

[ "PF04311", "cd01829" ]

[ "DUF459", "SGNH_hydrolase_peri2" ]

[ 2250, 1302 ]

2

[]

0

[ "7tjb", "7tlv", "7trr", "8gr2", "8tlb" ]

5

[ "PUB00005440" ]

[ "7610479" ]

[ "A new family of lipolytic enzymes?" ]

[ 1995 ]

1

[]

0

null

[ "Bacteria", "Chara braunii", "ecological metagenomes" ]

[ 2170, 1, 79 ]

3

[]

0

true

Family

Protein of unknown function DUF459

DUF459

7

IPR007408

7,408

Protein of unknown function DUF460

DUF460

Family

743

false

This is an archaeal protein of unknown function. This entry also includes bacterial proteins

[]

0

[ "PFAM", "PANTHER" ]

[ "PF04312", "PTHR40707" ]

[ "DUF460", "" ]

[ 731, 743 ]

2

[]

0

[]

0

[]

0

[]

0

null

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

[ 729, 2, 12 ]

3

[]

0

true

Family

Protein of unknown function DUF460

DUF460

4

IPR007409

7,409

Restriction endonuclease, type I, HsdR, N-terminal

Restrct_endonuc_type1_HsdR_N

Domain

23,546

false

This entry represents the N-terminal domain found in the R subunit (HsdR) of type I enzymes. The type I enzyme represented is EcoKI, which recognises the DNA sequence 5'-AACN6GTGC-3'; the R protein (HsdR) is required for both nuclease and ATPase activity [ , , ]. This domain is often found adjacent to a methylase domai...

[ "GO:0003677", "GO:0004519", "GO:0006304" ]

[ "DNA binding", "endonuclease activity", "DNA modification" ]

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

3

[ "PFAM" ]

[ "PF04313" ]

[ "HSDR_N" ]

[ 23546 ]

1

[ "EC", "GP" ]

[ "3.1.21.3", "GenProp0455" ]

[ "EC:3.1.21.3", "GP:GenProp0455" ]

2

[ "2w00", "4be7", "4beb", "4bec", "4xjx", "6h2j", "7bst", "7bto", "7btp", "7btq", "7btr" ]

11

[ "PUB00003225", "PUB00035705", "PUB00035706", "PUB00035707", "PUB00100412", "PUB00100413" ]

[ "3323532", "15121719", "12595133", "12665693", "9033396", "4868368" ]

[ "Organization and sequence of the hsd genes of Escherichia coli K-12.", "S-Adenosyl-L-methionine-dependent restriction enzymes.", "Complex restriction enzymes: NTP-driven molecular motors.", "Restriction endonucleases: classification, properties, and applications.", "The in vitro assembly of the EcoKI type ...

[ 1987, 2004, 2002, 2003, 1997, 1968 ]

6

[]

0

null

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

[ 649, 22602, 27, 20, 248 ]

5

[]

0

true

Domain

Restriction endonuclease, type I, HsdR, N-terminal

Restrct_endonuc_type1_HsdR_N

7

IPR007411

7,411

Elongation factor P hydroxylase

EpmC

Family

3,120

false

This family catalyses the final step in the elongation factor P modification pathway. It hydroxylates Lys-34 of elongation factor P. Members of this family have a conserved HEXXH motif, suggesting they are putative peptidases of zincin fold [ ].

[]

0

[ "PFAM" ]

[ "PF04315" ]

[ "EpmC" ]

[ 3120 ]

1

[ "GP" ]

[ "GenProp0988" ]

[ "GP:GenProp0988" ]

1

[ "3wtr", "4pdn" ]

2

[ "PUB00075423" ]

[ "2367159" ]

[ "Gamma-globulin treatment of recurrent acute otitis media in children." ]

[ 1990 ]

1

[]

0

null

[ "Bacteria", "Beauveria bassiana D1-5", "Myoviridae sp. ct4vg1", "unclassified sequences" ]

[ 3103, 1, 1, 15 ]

4

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Elongation factor P hydroxylase

EpmC

6

IPR007412

7,412

Anti-sigma-28 factor, FlgM

FlgM

Family

8,234

false

FlgM binds and inhibits the activity of the transcription factor sigma 28. Inhibition of sigma 28 prevents the expression of genes from flagellar transcriptional class 3, which include genes for the filament and chemotaxis. Correctly assembled basal body-hook structures export FlgM, relieving inhibition of sigma 28 and...

[ "GO:0045892" ]

[ "negative regulation of DNA-templated transcription" ]

[ "biological_process" ]

1

[ "NCBIFAM" ]

[ "TIGR03824" ]

[ "FlgM_jcvi" ]

[ 8234 ]

1

[]

0

[]

0

[ "PUB00010593" ]

[ "9095196" ]

[ "The C-terminal half of the anti-sigma factor, FlgM, becomes structured when bound to its target, sigma 28." ]

[ 1997 ]

1

[]

0

null

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

[ 8142, 7, 85 ]

3

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Anti-sigma-28 factor, FlgM

FlgM

6

IPR007413

7,413

Ras-like GTPase YcjX

YcjX-like

Family

4,955

false

This family represents a group of proteins related to Ras-like GTPase YcjX. The crystal structure of YcjX from Shewanella oneidensis has now been solved, and shows it to be a Ras-like GTP-binding protein that binds GTP and GDP, and has an intrinsic GTPase activity. YcjX utilises a non-canonical switch 2' motif not foun...

[]

0

[ "PFAM", "PIRSF", "PANTHER" ]

[ "PF04317", "PIRSF019381", "PTHR38605" ]

[ "DUF463", "YcjX", "" ]

[ 4955, 4604, 4949 ]

3

[ "EC" ]

[ "3.6.5.2" ]

[ "EC:3.6.5.2" ]

1

[ "6nz4", "6nz5", "6nz6" ]

3

[ "PUB00098451" ]

[ "31202886" ]

[ "Crystal Structure of the YcjX Stress Protein Reveals a Ras-Like GTP-Binding Protein." ]

[ 2019 ]

1

[]

0

null

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

[ 4931, 4, 20 ]

3

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Ras-like GTPase YcjX

YcjX-like

9

IPR007414

7,414

Protein of unknown function DUF468

DUF468

Family

24

false

This is a family of uncharacterised yeast proteins.

[]

0

[ "PFAM" ]

[ "PF04318" ]

[ "DUF468" ]

[ 24 ]

1

[]

0

[]

0

[]

0

[]

0

null

[ "Marinifilum caeruleilacunae", "Saccharomyces" ]

[ 1, 23 ]

2

[ "Saccharomyces cerevisiae (strain ATCC 204508 / S288c)" ]

[ 12 ]

1

true

Family

Protein of unknown function DUF468

DUF468

4

IPR007415

7,415

Nitrogenase MoFe maturation protein, NifZ

Nitrogenase_MoFe_mat_NifZ

Family

1,573

false

NifZ is a short protein is found in the nif (nitrogen fixation) operon. It is required for the maturation of the nitrogenase MoFe protein. In the absence of NifZ, only one of the two P-clusters of the MoFe protein is matured to the ultimate [8Fe-7S] structure. The other P-cluster site in the protein contains a [4Fe-4S]...

[ "GO:0009399" ]

[ "nitrogen fixation" ]

[ "biological_process" ]

1

[ "PFAM" ]

[ "PF04319" ]

[ "NifZ" ]

[ 1573 ]

1

[ "GP" ]

[ "GenProp0029" ]

[ "GP:GenProp0029" ]

1

[]

0

[ "PUB00054000", "PUB00054001", "PUB00054002" ]

[ "19334767", "17563349", "15485884" ]

[ "VTVH-MCD study of the Delta nifB Delta nifZ MoFe protein from Azotobacter vinelandii.", "P-cluster maturation on nitrogenase MoFe protein.", "Characterization of Azotobacter vinelandii nifZ deletion strains. Indication of stepwise MoFe protein assembly." ]

[ 2009, 2007, 2004 ]

3

[]

0

null

[ "Bacteria", "unclassified sequences" ]

[ 1548, 25 ]

2

[]

0

true

Family

Nitrogenase MoFe maturation protein, NifZ

Nitrogenase_MoFe_mat_NifZ

1

IPR007416

7,416

YggL 50S ribosome-binding protein

YggL_50S_bp

Family

2,858

false

YggL from E.coli was recently characterised and it interacts with ribosome subunits 50S and 70S. It is a 50S-binding protein likely to be involved in particle assembly. It is a small protein extremely conserved in Gammaproteobacteria but also present in orders Burkholderiales and Neisseriales from Betaproteobacteria [ ...

[]

0

[ "PFAM", "PANTHER" ]

[ "PF04320", "PTHR38778" ]

[ "YggL_50S_bp", "" ]

[ 2858, 2784 ]

2

[]

0

[]

0

[ "PUB00095181" ]

[ "32813020" ]

[ "Grad-seq shines light on unrecognized RNA and protein complexes in the model bacterium Escherichia coli." ]

[ 2020 ]

1

[]

0

null

[ "Bacteria", "Dendroctonus ponderosae", "unclassified sequences" ]

[ 2852, 1, 5 ]

3

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

YggL 50S ribosome-binding protein

YggL_50S_bp

5

IPR007418

7,418

Protein of unknown function DUF474

DUF474

Family

1,032

false

This is a family of uncharacterised archaeal/bacterial proteins.They are predicted to be integral membrane proteins with several transmembrane segments.

[]

0

[ "PIRSF" ]

[ "PIRSF015875" ]

[ "UCP015875" ]

[ 1032 ]

1

[]

0

[]

0

[]

0

[]

0

null

[ "Pseudomonadati", "metagenomes" ]

[ 1022, 10 ]

2

[]

0

true

Family

Protein of unknown function DUF474

DUF474

4

IPR007419

7,419

BFD-like [2Fe-2S]-binding domain

BFD-like_2Fe2S-bd_dom

Domain

42,939

false

The two Fe ions are each coordinated by two conserved cysteine residues. This domain occurs alone in small proteins such as bacterioferritin-associated ferredoxin (BFD, ). The function of BFD is not known, but it may be a general redox and/or regulatory component involved in the iron storage or mobilisation functions o...

[]

0

[ "PFAM" ]

[ "PF04324" ]

[ "Fer2_BFD" ]

[ 42939 ]

1

[ "GP", "GP" ]

[ "GenProp1554", "GenProp1746" ]

[ "GP:GenProp1554", "GP:GenProp1746" ]

2

[ "4e6k", "6e6q", "6e6r", "6e6s" ]

4

[ "PUB00009950" ]

[ "8639572" ]

[ "A [2Fe-2S] protein encoded by an open reading frame upstream of the Escherichia coli bacterioferritin gene." ]

[ 1996 ]

1

[]

0

null

[ "Acinetobacter phage vB_AbaM_ME3", "Archaea", "Bacteria", "Eukaryota", "unclassified sequences" ]

[ 1, 467, 40465, 1619, 387 ]

5

[ "Escherichia coli (strain K12)", "Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987)" ]

[ 3, 1 ]

2

true

Domain

BFD-like [2Fe-2S]-binding domain

BFD-like_2Fe2S-bd_dom

6

IPR007420

7,420

Protein of unknown function DUF465

DUF465

Family

12,010

false

Family members are found in small bacterial proteins, and also in the heavy chains of fungal proteins that contain the domain kinesin, in which this region is located C-terminal of the motor domain. Members of this family may form coiled coil structures [ ].

[]

0

[ "PFAM" ]

[ "PF04325" ]

[ "DUF465" ]

[ 12010 ]

1

[]

0

[ "1zhc" ]

1

[ "PUB00038888" ]

[ "16231304" ]

[ "Solution structure of HP1242 from Helicobacter pylori." ]

[ 2005 ]

1

[]

0

null

[ "Bacteria", "Eukaryota", "unclassified sequences", "uncultured Caudovirales phage" ]

[ 11853, 12, 141, 4 ]

4

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Protein of unknown function DUF465

DUF465

5

IPR007421

7,421

Schlafen, AlbA_2 domain

Schlafen_AlbA_2_dom

Domain

19,448

false

This entry represents the AlbA clan of DNA-binding domains. This is the AlbA_2 domain from the Schlafen (SLFN) family of proteins which are important in cell differentiation and defense against viruses [ , ]. This domain is present at the N-terminal of all SLFN proteins and includes the SLFN box, a sequence unique to t...

[]

0

[ "PFAM" ]

[ "PF04326" ]

[ "SLFN_AlbA_2" ]

[ 19448 ]

1

[ "REACTOME", "REACTOME" ]

[ "R-CEL-72163", "R-CEL-72203" ]

[ "REACTOME:R-CEL-72163", "REACTOME:R-CEL-72203" ]

2

[ "2kyy", "3lmm", "5yd0", "6rr9", "7cux", "7eg0", "7eg1", "7eg4", "7fex", "7ksp", "7lrc", "7lrd", "7lre", "7ppj", "7q3z", "7zel", "7zep", "7zes", "9erd", "9ere", "9erf", "9gmw", "9gmx", "9jn9", "9jr9", "9nyy", "9o0d", "9uie" ]

28

[ "PUB00151569", "PUB00151570" ]

[ "31026779", "34571887" ]

[ "Deciphering the three-domain architecture in schlafens and the structures and roles of human schlafen12 and serpinB12 in transcriptional regulation.", "Schlafens: Emerging Proteins in Cancer Cell Biology." ]

[ 2019, 2021 ]

2

[]

0

null

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

[ 523, 16211, 2246, 98, 370 ]

5

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

[ 1, 2, 17, 44, 21 ]

5

true

Domain

Schlafen, AlbA_2 domain

Schlafen_AlbA_2_dom

3

IPR007422

7,422

Cysteine protease Prp

Peptidase_Prp

Family

5,041

false

This is a family of cysteine proteases that are found to cleave the N terminus extension of ribosomal subunit L27 in eubacteria. Proteins in this family are distinguished by a pair of invariant histidine and cysteine residues with conserved spacing that form the classic catalytic dyad of a cysteine protease [ ]. Staphy...

[]

0

[ "PFAM", "PANTHER", "CDD" ]

[ "PF04327", "PTHR39178", "cd16332" ]

[ "Peptidase_Prp", "", "Prp-like" ]

[ 5040, 4563, 4957 ]

3

[ "EC" ]

[ "3.4.22.-" ]

[ "EC:3.4.22.-" ]

1

[ "1s12", "2g0i", "2g0j", "2idl", "4peo", "7jvs", "7kld" ]

7

[ "PUB00075697", "PUB00095805" ]

[ "25388641", "28187498" ]

[ "Specific N-terminal cleavage of ribosomal protein L27 in Staphylococcus aureus and related bacteria.", "Structural modeling and functional analysis of the essential ribosomal processing protease Prp from Staphylococcus aureus." ]

[ 2015, 2017 ]

2

[]

0

null

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

[ 4939, 12, 46, 44 ]

4

[]

0

true

Family

Cysteine protease Prp

Peptidase_Prp

6

IPR007423

7,423

Selenoprotein, putative

Sel_put

Family

6,350

false

This entry includes a group of putative selenoproteins from Proteobacteria, Actinobacteria and Firmicutes. The invariant cysteine at the C terminus is encoded by a TGA Sec codon in some Epsilonproteobacteria, suggesting a redox activity for the protein [ ].

[]

0

[ "PFAM", "PANTHER" ]

[ "PF04328", "PTHR38453" ]

[ "Sel_put", "" ]

[ 6350, 4565 ]

2

[]

0

[]

0

[ "PUB00081206" ]

[ "26342139" ]

[ "Evolution of the Selenoproteome in Helicobacter pylori and Epsilonproteobacteria." ]

[ 2015 ]

1

[]

0

null

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

[ 6331, 5, 14 ]

3

[ "Escherichia coli (strain K12)" ]

[ 2 ]

1

true

Family

Selenoprotein, putative

Sel_put

7

IPR007427

7,427

Protein of unknown function DUF475

DUF475

Family

4,180

false

This entry contains proteins that are predicted to be an integral membrane proteins with multiple transmembrane domains.

[]

0

[ "PFAM" ]

[ "PF04332" ]

[ "DUF475" ]

[ 4180 ]

1

[]

0

[]

0

[]

0

[]

0

null

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

[ 44, 4109, 2, 9, 16 ]

5

[]

0

true

Family

Protein of unknown function DUF475

DUF475

9

IPR007428

7,428

MlaA lipoprotein

MlaA

Family

11,462

false

Intermembrane phospholipid transport system lipoprotein MlaA is a component of the Mla pathway, an ABC transport system that functions to maintain the asymmetry of the outer membrane [ ]. MlaA, also known as VacJ, is required for the intercellular spreading of Shigella flexneri. It is attached to the outer membrane by ...

[ "GO:0016020" ]

[ "membrane" ]

[ "cellular_component" ]

1

[ "PFAM", "PRINTS", "PANTHER" ]

[ "PF04333", "PR01805", "PTHR30035" ]

[ "MlaA", "VACJLIPOPROT", "" ]

[ 10438, 10279, 11433 ]

3

[]

0

[ "5nuo", "5nup", "5nuq", "5nur", "8i8r", "8i8x" ]

6

[ "PUB00009953", "PUB00059298" ]

[ "8145644", "19383799" ]

[ "Identification and characterization of a chromosomal virulence gene, vacJ, required for intercellular spreading of Shigella flexneri.", "An ABC transport system that maintains lipid asymmetry in the gram-negative outer membrane." ]

[ 1994, 2009 ]

2

[]

0

null

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

[ 11275, 18, 2, 167 ]

4

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

MlaA lipoprotein

MlaA

9

IPR007429

7,429

Protein of unknown function DUF478

DUF478

Family

2

false

This family contains uncharacterised protein encoded on Trypanosomal kinetoplast minicircles.

[]

0

[ "PFAM" ]

[ "PF04334" ]

[ "DUF478" ]

[ 2 ]

1

[]

0

[]

0

[]

0

[]

0

null

[ "Trypanosoma brucei brucei" ]

[ 2 ]

1

[]

0

true

Family

Protein of unknown function DUF478

DUF478

5

IPR007430

7,430

Bacterial virulence protein VirB8-like

VirB8-like

Domain

8,097

false

VirB8 is a bacterial virulence protein with cytoplasmic, transmembrane, and periplasmic regions. It is thought that it is a primary constituent of a DNA transporter. The periplasmic region interacts with VirB9, VirB10, and itself [ ]. It is required for stabilisation of VirB3 (an inner membrane protein) [ ]. This entry...

[ "GO:0016020" ]

[ "membrane" ]

[ "cellular_component" ]

1

[ "PFAM" ]

[ "PF04335" ]

[ "VirB8" ]

[ 8097 ]

1

[ "GP" ]

[ "GenProp0490" ]

[ "GP:GenProp0490" ]

1

[ "2bhm", "2cc3", "4aky", "4akz", "4jf8", "4kz1", "4lso", "4mei", "4nhf", "4o3v", "5i97", "5jbs", "5wic", "5wii", "5wio", "5wip", "6iqt", "7o41", "7oiu", "7q1v", "7sh3", "8rta", "8rtb", "8rtd" ]

24

[ "PUB00009954", "PUB00010066", "PUB00039964", "PUB00062331", "PUB00163255", "PUB00163256" ]

[ "11371528", "11846762", "16481621", "20348257", "35732732", "38886579" ]

[ "Functional analysis of the Agrobacterium tumefaciens T-DNA transport pore protein VirB8.", "Biomonitoring of pJP4-carrying Pseudomonas chlororaphis with Trb protein-specific antisera.", "Agrobacterium tumefaciens VirB8 structure reveals potential protein-protein interaction sites.", "Agrobacterium tumefacien...

[ 2001, 2001, 2006, 2010, 2022, 2024 ]

6

[]

[ "IPR035658" ]

0

1

0

[ "Bacteria", "Eukaryota", "metagenomes", "plasmids", "uncultured Caudovirales phage" ]

[ 8003, 29, 53, 11, 1 ]

5

[]

0

true

Domain

Bacterial virulence protein VirB8-like

VirB8-like

9

IPR007431

7,431

Acyl carrier protein phosphodiesterase

ACP_PD

Family

5,678

false

This entry contains the Escherichia coli gene yajB, now renamed acpH, which encodes an ACP hydrolase. AcpH converts holo-ACP to apo-ACP by hydrolytic cleavage of the phosphopantetheine prosthetic group from ACP [ ]. A mutant E. coli strain having a total deletion of the acpH grows normally, showing that phosphodiestera...

[ "GO:0008770", "GO:0006633" ]

[ "[acyl-carrier-protein] phosphodiesterase activity", "fatty acid biosynthetic process" ]

[ "molecular_function", "biological_process" ]

2

[ "PFAM", "PIRSF", "PANTHER" ]

[ "PF04336", "PIRSF011489", "PTHR38764" ]

[ "ACP_PD", "DUF479", "" ]

[ 5674, 4479, 5550 ]

3

[ "EC", "METACYC" ]

[ "3.1.4.14", "PWY-6012" ]

[ "EC:3.1.4.14", "METACYC:PWY-6012" ]

2

[]

0

[ "PUB00044655" ]

[ "16107329" ]

[ "The enigmatic acyl carrier protein phosphodiesterase of Escherichia coli: genetic and enzymological characterization." ]

[ 2005 ]

1

[]

[ "IPR023491" ]

0

1

0

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

[ 5633, 6, 39 ]

3

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Acyl carrier protein phosphodiesterase

ACP_PD

5

IPR007432

7,432

Protein of unknown function DUF480

DUF480

Family

4,940

false

This family consists of several proteins of uncharacterised function.

[]

0

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

[ "MF_01584", "PF04337", "PTHR38768" ]

[ "UPF0502", "DUF480", "" ]

[ 4584, 4919, 4931 ]

3

[]

0

[ "3bz6", "5u8j", "5vyv" ]

3

[]

0

[]

0

null

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

[ 4902, 7, 31 ]

3

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Protein of unknown function DUF480

DUF480

8

IPR007433

7,433

Protein of unknown function DUF481

DUF481

Family

7,711

false

This family includes several proteins of uncharacterised function.

[]

0

[ "PFAM" ]

[ "PF04338" ]

[ "DUF481" ]

[ 7711 ]

1

[]

0

[]

0

[]

0

[]

0

null

[ "Bacteria", "Eukaryota", "metagenomes", "uncultured Caudovirales phage" ]

[ 7549, 14, 147, 1 ]

4

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Protein of unknown function DUF481

DUF481

5

IPR007435

7,435

Protein of unknown function DUF484

DUF484

Family

7,332

false

This family consists of several proteins of uncharacterised function.

[]

0

[ "PFAM", "PANTHER" ]

[ "PF04340", "PTHR38765" ]

[ "DUF484", "" ]

[ 7331, 6087 ]

2

[]

0

[ "3e98" ]

1

[]

0

[]

0

null

[ "Bacteria", "Eukaryota", "unclassified sequences", "uncultured marine thaumarchaeote KM3_41_D11" ]

[ 7214, 4, 113, 1 ]

4

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Protein of unknown function DUF484

DUF484

1

IPR007436

7,436

Protein of unknown function DUF485

DUF485

Family

11,723

false

This family includes several putative integral membrane proteins.

[]

0

[ "PFAM" ]

[ "PF04341" ]

[ "DUF485" ]

[ 11723 ]

1

[]

0

[]

0

[]

0

[]

0

null

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

[ 8, 11670, 4, 41 ]

4

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Protein of unknown function DUF485

DUF485

3

IPR007437

7,437

Protein of unknown function DUF486

DUF486

Family

4,295

false

This family contains several proteins of uncharacterised function. The family is represented in the Transport classification database as 2.A.7.34, though the exact nature of what is transported is not known.

[]

0

[ "PFAM", "PIRSF", "PANTHER" ]

[ "PF04342", "PIRSF021239", "PTHR38482" ]

[ "DMT_6", "UCP021239", "" ]

[ 4295, 4096, 4275 ]

3

[]

0

[]

0

[]

0

[]

0

null

[ "Bacteria", "Eukaryota", "Methanococcus maripaludis", "Yasminevirus sp. GU-2018", "metagenomes" ]

[ 4218, 17, 15, 1, 44 ]

5

[]

0

true

Family

Protein of unknown function DUF486

DUF486

4

IPR007439

7,439

Chemotaxis phosphatase, CheZ

Chemotax_Pase_CheZ

Family

6,327

false

This family represents the bacterial chemotaxis phosphatase, CheZ. This protein forms a dimer characterised by a long four-helix bundle, composed of two helices from each monomer. CheZ dephosphorylates CheY in a reaction that is essential to maintain a continuous chemotactic response to environmental changes. It is tho...

[ "GO:0003824", "GO:0050920", "GO:0009288" ]

[ "catalytic activity", "regulation of chemotaxis", "bacterial-type flagellum" ]

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

3

[ "PFAM", "PIRSF" ]

[ "PF04344", "PIRSF002884" ]

[ "CheZ", "CheZ" ]

[ 6327, 4660 ]

2

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

[ "3.1.3.-", "GenProp1139", "PWY-4702", "PWY-5491", "PWY-6148", "PWY-6352", "PWY-6365", "PWY-6366", "PWY-6368", "PWY-6456", "PWY-6575", "PWY-6627", "PWY-6664", "PWY-6686", "PWY-6720", "PWY-6724", "PWY-6955", "PWY-6990", "PWY-6991", "PWY-7018", "PWY-7119", "PWY-7321", "PWY-7...

[ "EC:3.1.3.-", "GP:GenProp1139", "METACYC:PWY-4702", "METACYC:PWY-5491", "METACYC:PWY-6148", "METACYC:PWY-6352", "METACYC:PWY-6365", "METACYC:PWY-6366", "METACYC:PWY-6368", "METACYC:PWY-6456", "METACYC:PWY-6575", "METACYC:PWY-6627", "METACYC:PWY-6664", "METACYC:PWY-6686", "METACYC:PWY-672...

37

[ "1kmi" ]

1

[]

0

[]

0

null

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

[ 6242, 11, 74 ]

3

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Chemotaxis phosphatase, CheZ

Chemotax_Pase_CheZ

6

IPR007440

7,440

Chorismate--pyruvate lyase

Chorismate--pyruvate_lyase

Family

5,643

false

Chorismate--pyruvate lyase catalyses the first step in ubiquinone synthesis, the removal of pyruvate from chorismate, to yield 4-hydroxybenzoate in Escherichia coli and other Gram-negative bacteria [ ]. The yeast Saccharomyces cerevisiae can synthesize ubiquinone from either chorismate or tyrosine [ ], however this enz...

[ "GO:0008813", "GO:0006744", "GO:0005737" ]

[ "chorismate lyase activity", "ubiquinone biosynthetic process", "cytoplasm" ]

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

3

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

[ "MF_01632", "PF04345", "PTHR38683" ]

[ "UbiC", "Chor_lyase", "" ]

[ 4923, 5626, 5537 ]

3

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

[ "4.1.3.40", "GenProp0136", "GenProp1291", "GenProp1585", "PWY-5755", "PWY-5870", "PWY-6148", "PWY-7742", "PWY-7745", "PWY-7929", "PWY-7934", "PWY-7935" ]

[ "EC:4.1.3.40", "GP:GenProp0136", "GP:GenProp1291", "GP:GenProp1585", "METACYC:PWY-5755", "METACYC:PWY-5870", "METACYC:PWY-6148", "METACYC:PWY-7742", "METACYC:PWY-7745", "METACYC:PWY-7929", "METACYC:PWY-7934", "METACYC:PWY-7935" ]

12

[ "1fw9", "1g1b", "1g81", "1jd3", "1tt8", "1xlr", "2ahc" ]

7

[ "PUB00013848", "PUB00043347", "PUB00043348" ]

[ "11583838", "1644758", "8012607" ]

[ "Ubiquinone biosynthesis in microorganisms.", "Cloning and sequencing of Escherichia coli ubiC and purification of chorismate lyase.", "Formation of 4-hydroxybenzoate in Escherichia coli: characterization of the ubiC gene and its encoded enzyme chorismate pyruvate-lyase." ]

[ 2001, 1992, 1994 ]

3

[]

0

null

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

[ 5563, 6, 74 ]

3

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Chorismate--pyruvate lyase

Chorismate--pyruvate_lyase

7

IPR007441

7,441

Ethanolamine utilisation protein EutH

EutH

Family

2,300

false

Protonated ethanolamine does not enter cells, while uncharged ethanolamine diffuses freely across the membrane. External concentrations of the two forms vary with the pH. It has been shown in Salmonella enterica that EutH is a membrane protein that facilitates diffusion of protonated ethanolamine [ ]. It is involved in...

[ "GO:0034228", "GO:0034229", "GO:0016020" ]

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

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

3

[ "PFAM", "PIRSF", "PANTHER" ]

[ "PF04346", "PIRSF019466", "PTHR40089" ]

[ "EutH", "EutH", "" ]

[ 2300, 2042, 2290 ]

3

[ "GP", "GP" ]

[ "GenProp0292", "GenProp0294" ]

[ "GP:GenProp0292", "GP:GenProp0294" ]

2

[]

0

[ "PUB00061669", "PUB00097901" ]

[ "15466042", "29531136" ]

[ "A pH-sensitive function and phenotype: evidence that EutH facilitates diffusion of uncharged ethanolamine in Salmonella enterica.", "The Ethanolamine Permease EutH Promotes Vacuole Adaptation of Salmonella enterica and Listeria monocytogenes during Macrophage Infection." ]

[ 2004, 2018 ]

2

[]

0

null

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

[ 2282, 7, 4, 7 ]

4

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Ethanolamine utilisation protein EutH

EutH

9

IPR007444

7,444

Glucan biosynthesis, periplasmic, MdoG C-terminal

Glucan_biosyn_MdoG_C

Domain

8,394

false

Membrane-derived oligosaccharides (MDO) are members of a family of glucans found in the periplasmic space of Gram-negative bacteria. MdoG has been shown to be necessary for the synthesis of MDO [ ], but its exact function is not known yet. MdoD, an MdoG paralog, is a twin-arginine-dependent periplasmic protein that con...

[ "GO:0016051", "GO:0042597" ]

[ "carbohydrate biosynthetic process", "periplasmic space" ]

[ "biological_process", "cellular_component" ]

2

[ "PFAM" ]

[ "PF04349" ]

[ "MdoG" ]

[ 8394 ]

1

[]

0

[ "1txk", "8iox", "8ip1", "8ip2", "8x18", "9e01", "9e08" ]

7

[ "PUB00027713", "PUB00027777" ]

[ "15175282", "7934824" ]

[ "Identification of mdoD, an mdoG paralog which encodes a twin-arginine-dependent periplasmic protein that controls osmoregulated periplasmic glucan backbone structures.", "Homology between a genetic locus (mdoA) involved in the osmoregulated biosynthesis of periplasmic glucans in Escherichia coli and a genetic lo...

[ 2004, 1993 ]

2

[]

0

null

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

[ 8327, 13, 54 ]

3

[ "Escherichia coli (strain K12)" ]

[ 2 ]

1

true

Domain

Glucan biosynthesis, periplasmic, MdoG C-terminal

Glucan_biosyn_MdoG_C

1

IPR007445

7,445

Type IV pilus inner membrane component PilO

PilO

Family

6,840

false

Bacterial type IV pili are surface filaments critical for diverse biological processes including surface and host cell adhesion, colonisation, biofilm formation, twitching motility, DNA uptake during natural transformation and virulence [ , ]. The proteins necessary to form the type IV pili inner-membrane complex, are ...

[ "GO:0043107", "GO:0043683" ]

[ "type IV pilus-dependent motility", "type IV pilus assembly" ]

[ "biological_process", "biological_process" ]

2

[ "PFAM", "PIRSF" ]

[ "PF04350", "PIRSF016482" ]

[ "PilO", "PilO" ]

[ 6840, 3621 ]

2

[]

0

[ "2rjz", "3jc8", "3jc9", "5uvr" ]

4

[ "PUB00017642", "PUB00059721", "PUB00094564", "PUB00094575" ]

[ "7565110", "19857646", "27022027", "19857645" ]

[ "Characterization of a five-gene cluster required for the biogenesis of type 4 fimbriae in Pseudomonas aeruginosa.", "Periplasmic domains of Pseudomonas aeruginosa PilN and PilO form a stable heterodimeric complex.", "PilN Binding Modulates the Structure and Binding Partners of the Pseudomonas aeruginosa Type I...

[ 1995, 2009, 2016, 2009 ]

4

[]

0

null

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

[ 6661, 10, 2, 167 ]

4

[]

0

true

Family

Type IV pilus inner membrane component PilO

PilO

1

IPR007446

7,446

Type IV pilus inner membrane component PilP

PilP

Family

4,550

false

Bacterial type IV pili are surface filaments critical for diverse biological processes including surface and host cell adhesion, colonisation, biofilm formation, twitching motility, DNA uptake during natural transformation and virulence [ , ]. The proteins necessary to form the type IV pili inner-membrane complex, are ...

[]

0

[ "PFAM", "PIRSF" ]

[ "PF04351", "PIRSF016481" ]

[ "PilP", "Pilus_assembly_PilP" ]

[ 4550, 3648 ]

2

[]

0

[ "2ivw", "2lc4", "2y4x", "2y4y", "3jc8", "3jc9", "4av2" ]

7

[ "PUB00012885", "PUB00017642", "PUB00059721", "PUB00094564", "PUB00094575", "PUB00094576" ]

[ "11751821", "7565110", "19857646", "27022027", "19857645", "23457250" ]

[ "Genes required for plasmid R64 thin-pilus biogenesis: identification and localization of products of the pilK, pilM, pilO, pilP, pilR, and pilT genes.", "Characterization of a five-gene cluster required for the biogenesis of type 4 fimbriae in Pseudomonas aeruginosa.", "Periplasmic domains of Pseudomonas aerug...

[ 2002, 1995, 2009, 2016, 2009, 2013 ]

6

[]

[ "IPR016506" ]

0

1

0

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

[ 4456, 8, 2, 84 ]

4

[]

0

true

Family

Type IV pilus inner membrane component PilP

PilP

2

IPR007448

7,448

Regulator of RNA polymerase sigma(70) subunit, Rsd/AlgQ

Sigma70_reg_Rsd_AlgQ

Family

3,176

false

This family includes bacterial transcriptional regulators that are thought to act through an interaction with the conserved region 4 of the sigma(70) subunit of RNA polymerase [ ]. The Pseudomonas aeruginosa homologue, AlgQ, positively regulates virulence gene expression and is associated with the mucoid phenotype obse...

[ "GO:0006355" ]

[ "regulation of DNA-templated transcription" ]

[ "biological_process" ]

1

[ "NCBIFAM", "PFAM", "PIRSF" ]

[ "NF008723", "PF04353", "PIRSF016548" ]

[ "PRK11718.1", "Rsd_AlgQ", "Rsd_AlgQ" ]

[ 3006, 3176, 3025 ]

3

[]

0

[ "2p7v", "4xwj" ]

2

[ "PUB00048628" ]

[ "17681541" ]

[ "Crystal structure of the Escherichia coli regulator of sigma70, Rsd, in complex with sigma70 domain 4." ]

[ 2007 ]

1

[]

0

null

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

[ 3141, 6, 29 ]

3

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Regulator of RNA polymerase sigma(70) subunit, Rsd/AlgQ

Sigma70_reg_Rsd_AlgQ

8

IPR007449

7,449

ZipA, C-terminal FtsZ-binding domain

ZipA_FtsZ-bd_C

Domain

6,925

false

This entry represents the ZipA C-terminal domain. ZipA, a membrane-anchored protein, is an essential cell division protein involved in septum formation [ , ]. FtsA and the C-terminal domain of ZipA bind FtsZ, a homologue of eukaryotic tubulins and a major component of the bacterial septal ring [ ], at the prospective d...

[ "GO:0090529" ]

[ "cell septum assembly" ]

[ "biological_process" ]

1

[ "PFAM", "SMART", "CDD" ]

[ "PF04354", "SM00771", "cd00231" ]

[ "ZipA_C", "ZipA_C", "ZipA" ]

[ 6739, 6748, 1671 ]

3

[]

0

[ "1f46", "1f47", "1f7w", "1f7x", "1s1j", "1s1s", "1y2f", "1y2g", "9iue" ]

9

[ "PUB00009957", "PUB00033605", "PUB00033606", "PUB00033607", "PUB00081658", "PUB00081659", "PUB00081660" ]

[ "10924108", "9008158", "9864327", "10209756", "11163134", "11948172", "11847116" ]

[ "Solution structure of ZipA, a crucial component of Escherichia coli cell division.", "Direct binding of FtsZ to ZipA, an essential component of the septal ring structure that mediates cell division in E. coli.", "Recruitment of ZipA to the septal ring of Escherichia coli is dependent on FtsZ and independent of...

[ 2000, 1997, 1999, 1999, 2001, 2002, 2002 ]

7

[]

0

null

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

[ 6821, 11, 93 ]

3

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Domain

ZipA, C-terminal FtsZ-binding domain

ZipA_FtsZ-bd_C

6

IPR007450

7,450

Outer membrane protein assembly factor BamE domain

BamE_dom

Domain

13,690

false

This domain is found in bacterial outer membrane lipoproteins probably involved in maintaining the structural integrity of the cell envelope [ ], including Outer membrane protein assembly factor BamE from Vibrio cholerae (also known as SmpA). The lipid attachment site is a conserved N-terminal cysteine residue sometime...

[ "GO:0019867" ]

[ "outer membrane" ]

[ "cellular_component" ]

1

[ "PFAM" ]

[ "PF04355" ]

[ "BamE" ]

[ 13690 ]

1

[ "GP", "REACTOME" ]

[ "GenProp0725", "R-HSA-9760173" ]

[ "GP:GenProp0725", "REACTOME:R-HSA-9760173" ]

2

[ "2km7", "2kxx", "2pxg", "2yh9", "4dm5", "5ayw", "5d0o", "5d0q", "5ekq", "5ljo", "5wam", "6lyq", "6lyr", "6lys", "6lyu", "6smx", "6sn0", "6sn2", "6sn3", "6sn4", "6sn5", "6sn7", "6sn8", "6sn9", "6so7", "6so8", "6soa", "6sob", "6soc", "6sog", "6soh", "6soj"...

97

[ "PUB00009958", "PUB00095169" ]

[ "9973334", "27074146" ]

[ "Pseudomonas aeruginosa fur overlaps with a gene encoding a novel outer membrane lipoprotein, OmlA.", "Discovery of a novel periplasmic protein that forms a complex with a trimeric autotransporter adhesin and peptidoglycan." ]

[ 1999, 2016 ]

2

[]

0

null

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

[ 13513, 3, 25, 149 ]

4

[ "Escherichia coli (strain K12)" ]

[ 2 ]

1

true

Domain

Outer membrane protein assembly factor BamE domain

BamE_dom

1

IPR007451

7,451

High frequency lysogenization protein HflD

HflD

Family

4,609

false

When bacteriophage lambda infects to the Escherichia coli cell, it undergoes either lytic growth or lysogenization. The lambda CII protein is a key determinant in the lysis-lysogeny decision. Escherichia coli HflD is a factor that may sequesters CII from the target promoters and recruits it to the membrane where the Ft...

[]

0

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

[ "MF_00695", "PF04356", "PTHR38100" ]

[ "HflD_protein", "DUF489", "" ]

[ 4393, 4609, 4599 ]

3

[]

0

[ "1qz4", "1sdi" ]

2

[ "PUB00086539" ]

[ "11278968" ]

[ "Revisiting the lysogenization control of bacteriophage lambda. Identification and characterization of a new host component, HflD." ]

[ 2001 ]

1

[]

0

null

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

[ 4549, 8, 52 ]

3

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

High frequency lysogenization protein HflD

HflD

5

IPR007452

7,452

Translocation and assembly module TamB, C-terminal domain

TamB_C

Domain

17,451

false

This entry represents the C-terminal domain in TamB proteins mainly found in bacteria and plants. TamB is an integral inner membrane protein that forms a complex, the translocation and assembly module or TAM [ ], with the outer membrane protein, TamA. TAM facilitates the insertion and assembly of specific β-barrel prot...

[ "GO:0009306", "GO:0005886" ]

[ "protein secretion", "plasma membrane" ]

[ "biological_process", "cellular_component" ]

2

[ "PFAM" ]

[ "PF04357" ]

[ "TamB" ]

[ 17451 ]

1

[]

0

[ "5vtg" ]

1

[ "PUB00076280", "PUB00078749", "PUB00162312", "PUB00162313" ]

[ "22466966", "25195908", "39174534", "29129383" ]

[ "Discovery of an archetypal protein transport system in bacterial outer membranes.", "Recombinant expression, purification, crystallization and preliminary X-ray diffraction analysis of the C-terminal DUF490(963-1138) domain of TamB from Escherichia coli.", "The translocation assembly module (TAM) catalyzes the...

[ 2012, 2014, 2024, 2017 ]

4

[]

0

null

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

[ 16438, 807, 1, 205 ]

4

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

[ 6, 1, 2, 13 ]

4

true

Domain

Translocation and assembly module TamB, C-terminal domain

TamB_C

3

IPR007453

7,453

Sulphur transfer protein DsrC/TusE

DsrC/TusE

Family

5,969

false

Members of this protein family include TusE, a partner to TusBCD in a sulphur relay system for 2-thiouridine biosynthesis, a tRNA base modification process [ ]. Other members are DsrC [ ], a functionally similar protein in species where the sulphur relay system exists primarily for sulphur metabolism [ ], rather than t...

[]

0

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

[ "PF04358", "PIRSF006223", "PTHR37010", "TIGR03342" ]

[ "DsrC", "DsrC_TusE", "", "dsrC_tusE_dsvC" ]

[ 5967, 5656, 5858, 5847 ]

4

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

[ "2.8.1.-", "GenProp0654", "GenProp1134", "GenProp1161", "GenProp1555", "PWY-5303", "PWY-6675", "PWY-6892", "PWY-7250", "PWY-7887", "PWY-7888", "PWY-7889", "PWY-7891", "PWY-7892", "PWY-7904", "PWY-8164", "PWY-8179" ]

[ "EC:2.8.1.-", "GP:GenProp0654", "GP:GenProp1134", "GP:GenProp1161", "GP:GenProp1555", "METACYC:PWY-5303", "METACYC:PWY-6675", "METACYC:PWY-6892", "METACYC:PWY-7250", "METACYC:PWY-7887", "METACYC:PWY-7888", "METACYC:PWY-7889", "METACYC:PWY-7891", "METACYC:PWY-7892", "METACYC:PWY-7904", ...

17

[ "1ji8", "1sau", "1yx3", "2a5w", "2v4j", "2xsj", "3or1", "3or2", "7syb" ]

9

[ "PUB00043028", "PUB00049565", "PUB00060601" ]

[ "16387657", "18829451", "22815818" ]

[ "Mechanistic insights into sulfur relay by multiple sulfur mediators involved in thiouridine biosynthesis at tRNA wobble positions.", "The crystal structure of Desulfovibrio vulgaris dissimilatory sulfite reductase bound to DsrC provides novel insights into the mechanism of sulfate respiration.", "Cytoplasmic S...

[ 2006, 2008, 2012 ]

3

[]

0

null

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

[ 39, 5700, 3, 8, 219 ]

5

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Sulphur transfer protein DsrC/TusE

DsrC/TusE

9

IPR007454

7,454

Uncharacterised protein family UPF0250, YbeD-like

UPF0250_YbeD-like

Family

8,693

false

This family includes UPF0250 protein YbeD from Escherichia coli and similar prokaryotic proteins. YbeD shows structural homology to the regulatory domain from 3-phosphoglycerate dehydrogenase, which suggests a role in the allosteric regulation of lipoic acid biosynthesis or the glycine cleavage system [ ]. The protein ...

[]

0

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

[ "MF_00659", "PF04359", "PTHR38036" ]

[ "UPF0250", "DUF493", "" ]

[ 5158, 8693, 5502 ]

3

[]

0

[ "1rwu", "2h9z", "2joq" ]

3

[ "PUB00030824", "PUB00101008" ]

[ "15547281", "30939630" ]

[ "Structural similarity of YbeD protein from Escherichia coli to allosteric regulatory domains.", "Overexpression of YbeD in Escherichia coli Enhances Thermotolerance." ]

[ 2004, 2019 ]

2

[]

0

null

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

[ 7661, 929, 103 ]

3

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

[ 7, 1, 5, 7 ]

4

true

Family

Uncharacterised protein family UPF0250, YbeD-like

UPF0250_YbeD-like

9

IPR007455

7,455

Serglycin

Family

703

false

Serglycin was first identified as an intracellular proteoglycan expressed by hematopoietic cells. All inflammatory cells highly synthesize serglycin and store it in granules, where it interacts with numerous inflammatory mediators, such as proteases, chemokines, cytokines, and growth factors. Later serglycin was found ...

[]

0

[ "PFAM" ]

[ "PF04360" ]

[ "Serglycin" ]

[ 703 ]

1

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

[ "R-HSA-114608", "R-MMU-114608", "R-RNO-114608" ]

[ "REACTOME:R-HSA-114608", "REACTOME:R-MMU-114608", "REACTOME:R-RNO-114608" ]

3

[]

0

[ "PUB00088979", "PUB00088980" ]

[ "24455486", "20807648" ]

[ "Serglycin: at the crossroad of inflammation and malignancy.", "Serglycin proteoglycan deletion in mouse platelets: physiological effects and their implications for platelet contributions to thrombosis, inflammation, atherosclerosis, and metastasis." ]

[ 2014, 2010 ]

2

[]

0

null

[ "Eumetazoa" ]

[ 703 ]

1

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

[ 1, 1, 2, 4 ]

4

true

Family

Serglycin

5

IPR007456

7,456

Smg

Family

3,482

false

This entry represents the Smg family of bacterial proteins. Their function is unknown.

[]

0

[ "HAMAP", "PFAM" ]

[ "MF_00598", "PF04361" ]

[ "Smg", "DUF494" ]

[ 3277, 3482 ]

2

[]

0

[]

0

[]

0

[]

0

null

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

[ 3399, 9, 74 ]

3

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Smg

2

IPR007457

7,457

Fe(II) trafficking protein YggX

Fe_traffick_prot_YggX

Family

6,209

false

The protein represented by this entry, YggX, serves to protect Fe-S clusters from oxidative damage [ ]. The effect is two-fold: proteins that rely on Fe-S clusters do not become inactivated, and the release of free iron and hydrogen peroxide--a DNA damaging agent--is prevented. These observations are consistent with th...

[ "GO:0005506" ]

[ "iron ion binding" ]

[ "molecular_function" ]

1

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

[ "MF_00686", "NF003817", "PF04362", "PIRSF029827", "PTHR36965" ]

[ "Fe_traffic_YggX", "PRK05408.1", "Iron_traffic", "Fe_traffic_YggX", "" ]

[ 5916, 6076, 6209, 5895, 6123 ]

5

[]

0

[ "1t07", "1xs8", "1yhd", "2mzy" ]

4

[ "PUB00011006", "PUB00014997", "PUB00014998", "PUB00014999" ]

[ "11416172", "12033438", "14594836", "12670952" ]

[ "Protection from superoxide damage associated with an increased level of the YggX protein in Salmonella enterica.", "The chelatable iron pool in living cells: a methodically defined quantity.", "SoxRS-regulated expression and genetic analysis of the yggX gene of Escherichia coli.", "The YggX protein of Salmon...

[ 2001, 2002, 2003, 2003 ]

4

[]

0

null

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

[ 6052, 3, 45, 109 ]

4

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Fe(II) trafficking protein YggX

Fe_traffick_prot_YggX

4

IPR007458

7,458

Protein of unknown function DUF496

DUF496

Family

1,638

false

Members of this family are uncharacterised proteins.

[]

0

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

[ "MF_00683", "NF003844", "PF04363", "PIRSF028773", "PTHR39591" ]

[ "UPF0265", "PRK05423.1", "DUF496", "UCP028773", "" ]

[ 1610, 1620, 1638, 1607, 1633 ]

5

[]

0

[]

0

[]

0

[]

0

null

[ "Bacteria", "Eukaryota", "Tupanvirus" ]

[ 1632, 4, 2 ]

3

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Protein of unknown function DUF496

DUF496

8

IPR007459

7,459

DNA polymerase III chi subunit, HolC

DNA_pol3_chi

Family

9,399

false

The DNA polymerase III holoenzyme ( ) is the polymerase responsible for the replication of the Escherichia coli chromosome. The holoenzyme is composed of the DNA polymerase III core, the sliding clamp, and the DnaX clamp loading complex. The DnaX complex contains either the tau or gamma product of gene dnax, complexed ...

[ "GO:0003677", "GO:0003887", "GO:0006260" ]

[ "DNA binding", "DNA-directed DNA polymerase activity", "DNA replication" ]

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

3

[ "PFAM", "PANTHER" ]

[ "PF04364", "PTHR38767" ]

[ "DNA_pol3_chi", "" ]

[ 9398, 9206 ]

2

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

[ "2.7.7.7", "GenProp0263", "GenProp1117" ]

[ "EC:2.7.7.7", "GP:GenProp0263", "GP:GenProp1117" ]

3

[ "1em8", "3sxu" ]

2

[ "PUB00009966" ]

[ "7494000" ]

[ "DnaX complex of Escherichia coli DNA polymerase III holoenzyme. The chi psi complex functions by increasing the affinity of tau and gamma for delta.delta' to a physiologically relevant range." ]

[ 1995 ]

1

[]

0

null

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

[ 9288, 7, 104 ]

3

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

DNA polymerase III chi subunit, HolC

DNA_pol3_chi

7

IPR007460

7,460

Ribonuclease toxin, BrnT, of type II toxin-antitoxin system

BrnT_toxin

Family

7,367

false

BrnT is a ribonuclease toxin of a type II toxin-antitoxin system that exhibits a RelE-like fold. The antitoxin that neutralises this toxin is ( ). BrnT is found in bacteria, archaea, bacteriophage, and plasmids. BrnT-BrnA forms a 2:2 tetrameric complex and autoregulates its own expression, which is induced by a number ...

[]

0

[ "PFAM" ]

[ "PF04365" ]

[ "BrnT_toxin" ]

[ 7367 ]

1

[]

0

[ "3u97", "7vd7" ]

2

[ "PUB00058380" ]

[ "22334680" ]

[ "Molecular Structure and Function of the Novel BrnT/BrnA Toxin-Antitoxin System of Brucella abortus." ]

[ 2012 ]

1

[]

0

null

[ "Bacteria", "Caudoviricetes", "Opisthokonta", "Stenosarchaea group", "unclassified sequences" ]

[ 7170, 5, 6, 8, 178 ]

5

[]

0

true

Family

Ribonuclease toxin, BrnT, of type II toxin-antitoxin system

BrnT_toxin

9

IPR007461

7,461

Ysc84 actin-binding domain

Ysc84_actin-binding

Domain

13,953

false

This entry corresponds to proteins having the Ysc84 actin binding domain (YAB). This 184 amino acid domain lies at the N terminus of the Saccharomyces cerevisiae (Baker's yeast) protein Ysc84 ( ). It is essential for the organisation of the actin cytoskeleton, and interacts with the Arp2/3 complex [ ]. Homologous domai...

[]

0

[ "PFAM" ]

[ "PF04366" ]

[ "Ysc84" ]

[ 13953 ]

1

[]

0

[ "7ofn" ]

1

[ "PUB00007698", "PUB00043838" ]

[ "11544518", "10512884" ]

[ "Prokaryotic origin of the actin cytoskeleton.", "The Saccharomyces cerevisiae homologue of human Wiskott-Aldrich syndrome protein Las17p interacts with the Arp2/3 complex." ]

[ 2001, 1999 ]

2

[]

[ "IPR033643" ]

0

1

0

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

[ 5102, 8758, 93 ]

3

[ "Arabidopsis thaliana", "Danio rerio", "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 (strain ATCC 204508 / S288c)", "Schizosaccharomyces pombe (st...

[ 11, 2, 5, 1, 3, 11, 5, 2, 1, 23 ]

10

true

Domain

Ysc84 actin-binding domain

Ysc84_actin-binding

2

IPR007463

7,463

Protein of unknown function DUF507

DUF507

Family

800

false

This entry represents a bacterial protein of unknown function. These proteins contain a C-terminal domain superfamily of bacterial trigger factor proteins-like fold.

[]

0

[ "PFAM" ]

[ "PF04368" ]

[ "DUF507" ]

[ 800 ]

1

[]

0

[ "8t8k", "8t8l" ]

2

[]

0

[]

0

null

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

[ 753, 1, 46 ]

3

[]

0

true

Family

Protein of unknown function DUF507

DUF507

4

IPR007464

7,464

Bacteriocin, class IId

Bacteriocin_IId

Family

100

false

Bacteriocins are produced by bacteria to inhibit the growth of similar or closely related bacterial strains. The class II bacteriocins are small heat-stable proteins for which disulphide bonds are the only modification to the peptide. Lactococcin A and B are class-IId bacteriocins (one-peptide non-pediocin-like bacteri...

[ "GO:0042742", "GO:0005576" ]

[ "defense response to bacterium", "extracellular region" ]

[ "biological_process", "cellular_component" ]

2

[ "PFAM" ]

[ "PF04369" ]

[ "Lactococcin" ]

[ 100 ]

1

[]

0

[ "8hfs" ]

1

[ "PUB00034682", "PUB00054234" ]

[ "16205711", "11014335" ]

[ "Bacteriocins: developing innate immunity for food.", "Nonlantibiotic antibacterial peptides from lactic acid bacteria." ]

[ 2005, 2000 ]

2

[]

0

null

[ "Bacteria" ]

[ 100 ]

1

[]

0

true

Family

Bacteriocin, class IId

Bacteriocin_IId

8

IPR007465

7,465

Domain of unknown function DUF508

DUF508

Domain

61

false

This is a ubiquitin-like domain found in uncharacterised proteins from Caenorhabditis elegans and related proteins from nematodes.

[]

0

[ "PFAM" ]

[ "PF04370" ]

[ "DUF508" ]

[ 61 ]

1

[]

0

[]

0

[]

0

[]

0

null

[ "Rhabditomorpha" ]

[ 61 ]

1

[ "Caenorhabditis elegans" ]

[ 1 ]

1

true

Domain

Domain of unknown function DUF508

DUF508

8

IPR007466

7,466

Peptidyl-arginine deiminase, Porphyromonas-type

Peptidyl-Arg-deiminase_porph

Family

14,734

false

Peptidyl-arginine deiminase (PAD) enzymes catalyse the deimination of the guanidino group from carboxy-terminal arginine residues of various peptides to produce ammonia. PAD from Porphyromonas gingivalis (Bacteroides gingivalis) (PPAD) appears to be evolutionarily unrelated to mammalian PAD ( ), which is a metalloenzym...

[ "GO:0004668", "GO:0009446" ]

[ "protein-arginine deiminase activity", "putrescine biosynthetic process" ]

[ "molecular_function", "biological_process" ]

2

[ "PFAM", "PANTHER" ]

[ "PF04371", "PTHR31377" ]

[ "PAD_porph", "" ]

[ 14731, 14564 ]

2

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

[ "3.5.3.12", "GenProp1431", "GenProp1733", "PWY-43" ]

[ "EC:3.5.3.12", "GP:GenProp1431", "GP:GenProp1733", "METACYC:PWY-43" ]

4

[ "1vkp", "1xkn", "1zbr", "2cmu", "2ewo", "2jer", "2q3u", "3h7c", "3h7k", "3hvm", "4yt9", "4ytb", "4ytg", "5ak7", "5ak8", "6b10", "6b2w", "6i0x", "6nib", "6nic" ]

20

[ "PUB00009967", "PUB00009968" ]

[ "11504612", "10377098" ]

[ "A novel superfamily of enzymes that catalyze the modification of guanidino groups.", "Purification, characterization, and sequence analysis of a potential virulence factor from Porphyromonas gingivalis, peptidylarginine deiminase." ]

[ 2001, 1999 ]

2

[]

[ "IPR017754" ]

0

1

0

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

[ 49, 12573, 6, 1894, 212 ]

5

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

[ 6, 4, 11 ]

3

true

Family

Peptidyl-arginine deiminase, Porphyromonas-type

Peptidyl-Arg-deiminase_porph

8

IPR007470

7,470

Putative uroporphyrinogen-III C-methyltransferase HemX

HemX

Family

6,439

false

This is a family of bacterial putative uroporphyrinogen-III C-methyltransferase proteins. It forms one of the members of a complex of proteins involved in the biogenesis of the inner membrane in E.coli. Uroporphorphyrin-III C-methyltransferase (HemX) is a single spanning inner membrane protein that regulates the activi...

[]

0

[ "PFAM", "PANTHER" ]

[ "PF04375", "PTHR38043" ]

[ "HemX", "" ]

[ 6351, 6383 ]

2

[]

0

[]

0

[ "PUB00009969", "PUB00054976" ]

[ "3062586", "16079137" ]

[ "Nucleotide sequence of the hemX gene, the third member of the Uro operon of Escherichia coli K12.", "Protein complexes of the Escherichia coli cell envelope." ]

[ 1988, 2005 ]

2

[]

0

null

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

[ 6352, 16, 1, 70 ]

4

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Putative uroporphyrinogen-III C-methyltransferase HemX

HemX

3

IPR007471

7,471

N-end aminoacyl transferase, N-terminal

N-end_Aminoacyl_Trfase_N

Domain

12,991

false

This entry represents the N-terminal region of aminoacyl-transferases found in both eukaryotic (Arginine-tRNA-protein transferase) and prokaryotic (Aspartate/glutamate leucyltransferase) enzymes. Arginine-tRNA-protein transferase catalyses the post-translational conjugation of arginine to the N terminus of a protein. I...

[ "GO:0004057", "GO:0016598" ]

[ "arginyl-tRNA--protein transferase activity", "protein arginylation" ]

[ "molecular_function", "biological_process" ]

2

[ "PFAM" ]

[ "PF04376" ]

[ "ATE_N" ]

[ 12991 ]

1

[ "EC", "METACYC" ]

[ "2.3.2.29", "PWY-7802" ]

[ "EC:2.3.2.29", "METACYC:PWY-7802" ]

2

[ "7tif", "7wfx", "7wg1", "7wg2", "7wg4", "8e3s", "8fzr", "8j6v", "8tzv", "8uau" ]

10

[ "PUB00009970", "PUB00009971", "PUB00088202" ]

[ "9858543", "7495814", "16492767" ]

[ "Alternative splicing results in differential expression, activity, and localization of the two forms of arginyl-tRNA-protein transferase, a component of the N-end rule pathway.", "Binding of phenylarsenoxide to Arg-tRNA protein transferase is independent of vicinal thiols.", "Aminoacyl-transferases and the N-e...

[ 1999, 1995, 2006 ]

3

[]

0

null

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

[ 7691, 5195, 105 ]

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...

[ 10, 5, 15, 2, 33, 5, 1, 3, 8, 1, 1, 6 ]

12

true

Domain

N-end aminoacyl transferase, N-terminal

N-end_Aminoacyl_Trfase_N

4

IPR007472

7,472

N-end rule aminoacyl transferase, C-terminal

N-end_Aminoacyl_Trfase_C

Domain

14,077

false

This entry represents the C-terminal region of aminoacyl-transferases found in both eukaryotic (Arginine-tRNA-protein transferase) and prokaryotic (Aspartate/glutamate leucyltransferase) enzymes. Arginine-tRNA-protein transferase catalyses the post-translational conjugation of arginine to the N terminus of a protein. I...

[ "GO:0004057", "GO:0016598" ]

[ "arginyl-tRNA--protein transferase activity", "protein arginylation" ]

[ "molecular_function", "biological_process" ]

2

[ "PFAM" ]

[ "PF04377" ]

[ "ATE_C" ]

[ 14077 ]

1

[ "EC", "METACYC" ]

[ "2.3.2.29", "PWY-7802" ]

[ "EC:2.3.2.29", "METACYC:PWY-7802" ]

2

[ "7tif", "7wfx", "7wg1", "7wg2", "7wg4", "8e3s", "8fzr", "8j6v", "8tzv", "8uau" ]

10

[ "PUB00009970", "PUB00009971", "PUB00088202" ]

[ "9858543", "7495814", "16492767" ]

[ "Alternative splicing results in differential expression, activity, and localization of the two forms of arginyl-tRNA-protein transferase, a component of the N-end rule pathway.", "Binding of phenylarsenoxide to Arg-tRNA protein transferase is independent of vicinal thiols.", "Aminoacyl-transferases and the N-e...

[ 1999, 1995, 2006 ]

3

[]

0

null

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

[ 8021, 5945, 111 ]

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...

[ 12, 5, 15, 2, 27, 6, 1, 3, 8, 1, 1, 9 ]

12

true

Domain

N-end rule aminoacyl transferase, C-terminal

N-end_Aminoacyl_Trfase_C

7

IPR007473

7,473

Ribosomal RNA large subunit methyltransferase J

RlmJ

Family

8,754

false

Ribosomal methyltransferase RlmJ (YhiR) specifically methylates the adenine in position 2030 of 23S rRNA [ , ]. Nascent 23S rRNA seems to be the natural substrate. RlmJ seems to be required for the utilisation of extracellular DNA as the sole source of carbon and energy [ ].

[ "GO:0008649", "GO:0070475" ]

[ "rRNA methyltransferase activity", "rRNA base methylation" ]

[ "molecular_function", "biological_process" ]

2

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

[ "MF_00934", "PF04378", "PTHR37426" ]

[ "23SrRNA_methyltr_J", "RsmJ", "" ]

[ 8276, 8702, 8668 ]

3

[]

0

[ "2oo3", "4blu", "4blv", "4blw", "6qdx", "6qe0", "6qe5", "7p8q", "7p9i", "7p9o" ]

10

[ "PUB00068648", "PUB00068649", "PUB00068650" ]

[ "22847818", "16707682", "23945937" ]

[ "The last rRNA methyltransferase of E. coli revealed: the yhiR gene encodes adenine-N6 methyltransferase specific for modification of A2030 of 23S ribosomal RNA.", "Escherichia coli competence gene homologs are essential for competitive fitness and the use of DNA as a nutrient.", "Structural and functional insi...

[ 2012, 2006, 2013 ]

3

[]

0

null

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

[ 8, 8526, 170, 50 ]

4

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Ribosomal RNA large subunit methyltransferase J

RlmJ

2

IPR007474

7,474

ApaG domain

ApaG_domain

Domain

14,434

false

The apaG domain is a ~125 amino acids domain present in bacterial apaG proteins and in eukaryotic F-box proteins. The domain is named after the bacterial apaG protein, of which it forms the core. The domain also occurs in the C-terminal part of eukaryotic proteins with an N-terminal F-box domain. The Salmonella typhimu...

[]

0

[ "PFAM", "PROFILE" ]

[ "PF04379", "PS51087" ]

[ "DUF525", "APAG" ]

[ 14188, 14411 ]

2

[ "PROSITEDOC" ]

[ "PDOC51087" ]

[ "PROSITEDOC:PDOC51087" ]

1

[ "1tza", "1xq4", "1xvs", "2f1e", "5hdw", "6z9c", "6zlx", "9kbd", "9kbf" ]

9

[ "PUB00009972", "PUB00016988", "PUB00016989", "PUB00018539" ]

[ "1779764", "10945468", "15213450", "12522211" ]

[ "Magnesium transport in Salmonella typhimurium: the influence of new mutations conferring Co2+ resistance on the CorA Mg2+ transport system.", "cDNA cloning and expression analysis of new members of the mammalian F-box protein family.", "1H, 15N and 13C resonance assignments of the ApaG protein of the phytopath...

[ 1991, 2000, 2004, 2003 ]

4

[]

0

null

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

[ 9212, 5086, 136 ]

3

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

[ 6, 1, 2, 2, 1, 9, 6, 12, 4, 14 ]

10

true

Domain

ApaG domain

ApaG_domain

5

IPR007476

7,476

Putative exonuclease, RdgC

RdgC

Family

7,278

false

Members of the RdgC family may have exonuclease activity. RdgC is required for efficient pilin variation in Neisseria gonorrhoeae, suggesting that it may be involved in recombination reactions [ ]. In Escherichia coli, RdgC is required for growth in recombination-deficient exonuclease-depleted strains. Under these cond...

[ "GO:0006310" ]

[ "DNA recombination" ]

[ "biological_process" ]

1

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

[ "MF_00194", "NF001464", "PF04381", "PTHR38103" ]

[ "RdgC", "PRK00321.1-5", "RdgC", "" ]

[ 4986, 6403, 7278, 6892 ]

4

[]

0

[ "2owl", "2owy" ]

2

[ "PUB00009974", "PUB00009975" ]

[ "8807285", "10655208" ]

[ "Recombination-dependent growth in exonuclease-depleted recBC sbcBC strains of Escherichia coli K-12.", "A homologue of the recombination-dependent growth gene, rdgC, is involved in gonococcal pilin antigenic variation." ]

[ 1996, 2000 ]

2

[]

0

null

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

[ 7096, 119, 19, 44 ]

4

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Putative exonuclease, RdgC

RdgC

1

IPR007477

7,477

SAB domain

SAB_dom

Domain

12,070

false

This presumed domain is found in proteins containing FERM domains . This domain is found to bind to both spectrin and actin, hence the name SAB (Spectrin and Actin Binding) domain [ ].

[ "GO:0008092", "GO:0030866", "GO:0005856" ]

[ "cytoskeletal protein binding", "cortical actin cytoskeleton organization", "cytoskeleton" ]

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

3

[ "PFAM" ]

[ "PF04382" ]

[ "SAB" ]

[ 12070 ]

1

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

[ "R-BTA-6794361", "R-HSA-399719", "R-HSA-6794361", "R-HSA-9662360", "R-HSA-9662361", "R-MMU-399719", "R-MMU-6794361", "R-RNO-399719", "R-RNO-6794361" ]

[ "REACTOME:R-BTA-6794361", "REACTOME:R-HSA-399719", "REACTOME:R-HSA-6794361", "REACTOME:R-HSA-9662360", "REACTOME:R-HSA-9662361", "REACTOME:R-MMU-399719", "REACTOME:R-MMU-6794361", "REACTOME:R-RNO-399719", "REACTOME:R-RNO-6794361" ]

9

[]

0

[ "PUB00020289" ]

[ "12044158" ]

[ "Functional characterization of spectrin-actin-binding domains in 4.1 family of proteins." ]

[ 2002 ]

1

[]

0

null

[ "Vertebrata" ]

[ 12070 ]

1

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

[ 148, 60, 42, 40 ]

4

true

Domain

SAB domain

SAB_dom

3

IPR007479

7,479

ISC system FeS cluster assembly, IscX

ISC_FeS_clus_asmbl_IscsX

Family

4,424

false

Iron-sulphur (FeS) clusters are important cofactors for numerous proteins involved in electron transfer, in redox and non-redox catalysis, in gene regulation, and as sensors of oxygen and iron. These functions depend on the various FeS cluster prosthetic groups, the most common being [2Fe-2S] and [4Fe-4S] [ ]. FeS clus...

[ "GO:0016226" ]

[ "iron-sulfur cluster assembly" ]

[ "biological_process" ]

1

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

[ "PF04384", "PIRSF039003", "PTHR37532", "TIGR03412" ]

[ "Fe-S_assembly", "IscX", "", "iscX_yfhJ" ]

[ 4424, 3837, 4308, 4392 ]

4

[ "GP" ]

[ "GenProp0138" ]

[ "GP:GenProp0138" ]

1

[ "1uj8", "2bzt" ]

2

[ "PUB00035635", "PUB00035636", "PUB00035637", "PUB00035638", "PUB00035643" ]

[ "16221578", "16211402", "16843540", "15937904", "16698547" ]

[ "How Escherichia coli and Saccharomyces cerevisiae build Fe/S proteins.", "Mechanisms of iron-sulfur cluster assembly: the SUF machinery.", "Mechanisms of iron-sulfur protein maturation in mitochondria, cytosol and nucleus of eukaryotes.", "Crystal structure of Escherichia coli YfhJ protein, a member of the I...

[ 2005, 2005, 2006, 2005, 2006 ]

5

[]

0

null

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

[ 4293, 77, 54 ]

3

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

ISC system FeS cluster assembly, IscX

ISC_FeS_clus_asmbl_IscsX

5

IPR007480

7,480

Protein of unknown function DUF529

DUF529

Repeat

1,286

false

This entry represents a repeated region found in proteins from Theileria species. The repeat is normally about 70 residues long and contains a conserved aromatic residue in the middle.

[]

0

[ "PFAM" ]

[ "PF04385" ]

[ "FAINT" ]

[ 1286 ]

1

[]

0

[]

0

[]

0

[]

0

null

[ "Pelagibaculum spongiae", "Piroplasmida" ]

[ 1, 1285 ]

2

[]

0

true

Repeat

Protein of unknown function DUF529

DUF529

4

IPR007481

7,481

Stringent starvation protein B

SspB

Family

9,441

false

Escherichia coli stringent starvation protein B (SspB), is thought to enhance the specificity of degradation of tmRNA-tagged proteins by the ClpXP protease. The tmRNA tag, also known as ssrA, is an 11-aa peptide added to the C terminus of proteins stalled during translation, targets proteins for degradation by ClpXP an...

[]

0

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

[ "NF008769", "PF04386", "PIRSF005276", "PTHR37486" ]

[ "PRK11798.2-5", "SspB", "SspB", "" ]

[ 6096, 9437, 5779, 6294 ]

4

[ "GP" ]

[ "GenProp0251" ]

[ "GP:GenProp0251" ]

1

[ "1ou8", "1ou9", "1oul", "1ox8", "1ox9", "1twb", "1yfn", "1zsz", "2nys", "2qas", "2qaz", "8et3" ]

12

[ "PUB00009976", "PUB00010112", "PUB00010113" ]

[ "11009422", "11535833", "11810257" ]

[ "A specificity-enhancing factor for the ClpXP degradation machine.", "Overlapping recognition determinants within the ssrA degradation tag allow modulation of proteolysis.", "Screening for stabilization of proteins with a trans-translation signature in Escherichia coli selects for inactivation of the ClpXP prot...

[ 2000, 2001, 2002 ]

3

[]

0

null

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

[ 9296, 12, 22, 111 ]

4

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Stringent starvation protein B

SspB

4

IPR007483

7,483

Hamartin

Family

4,255

false

This entry includes the hamartin protein, also known as Tuberous sclerosis 1 protein (TSC1), the non-catalytic component of the TSC-TBC complex, a multiprotein complex that acts as a negative regulator of the canonical mTORC1 complex [ , ]. This complex acts as a GTPase-activating protein (GAP) for the small GTPase RHE...

[]

0

[ "PFAM", "PANTHER" ]

[ "PF04388", "PTHR15154" ]

[ "Hamartin", "" ]

[ 3793, 4230 ]

2

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

[ "GenProp2033", "R-HSA-1632852", "R-HSA-165181", "R-HSA-380972", "R-HSA-5628897", "R-HSA-8854214", "R-MMU-1632852", "R-MMU-165181", "R-MMU-380972", "R-MMU-5628897", "R-MMU-8854214", "R-RNO-1632852", "R-RNO-165181", "R-RNO-380972", "R-RNO-5628897", "R-RNO-8854214", "R-SPO-165181", "R...

[ "GP:GenProp2033", "REACTOME:R-HSA-1632852", "REACTOME:R-HSA-165181", "REACTOME:R-HSA-380972", "REACTOME:R-HSA-5628897", "REACTOME:R-HSA-8854214", "REACTOME:R-MMU-1632852", "REACTOME:R-MMU-165181", "REACTOME:R-MMU-380972", "REACTOME:R-MMU-5628897", "REACTOME:R-MMU-8854214", "REACTOME:R-RNO-1632...

19

[ "4kk0", "4kk1", "7a0m", "7a0n", "7dl2", "9ce3" ]

6

[ "PUB00163208", "PUB00163209" ]

[ "24529379", "33974911" ]

[ "Spatial control of the TSC complex integrates insulin and nutrient regulation of mTORC1 at the lysosome.", "TSC1 binding to lysosomal PIPs is required for TSC complex translocation and mTORC1 regulation." ]

[ 2014, 2021 ]

2

[]

0

null

[ "Eukaryota", "Pseudomonadati" ]

[ 4253, 2 ]

2

[ "Danio rerio", "Drosophila melanogaster", "Homo sapiens", "Mus musculus", "Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987)", "Rattus norvegicus", "Schizosaccharomyces pombe (strain 972 / ATCC 24843)" ]

[ 9, 7, 36, 4, 2, 3, 1 ]

7

true

Family

Hamartin

8

IPR007484

7,484

Peptidase M28

Peptidase_M28

Domain

78,496

false

This domain is found in metallopeptidases belonging to the MEROPS peptidase family M28 (aminopeptidase Y, clan MH) [ ] and in non-peptidase homologues such as transferrin receptor proteins. Members containing this domain, also contain a transferrin receptor-like dimerisation domain ( ) and a protease-associated PA doma...

[]

0

[ "PFAM" ]

[ "PF04389" ]

[ "Peptidase_M28" ]

[ 78496 ]

1

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

[ "R-CEL-432722", "R-CEL-8963693", "R-CEL-8980692", "R-CEL-9013026", "R-CEL-9013149", "R-CEL-9013404", "R-CEL-9013406", "R-CEL-9013407", "R-CEL-9013408", "R-CEL-9013423", "R-DDI-6798695", "R-DME-6798695", "R-HSA-432722", "R-HSA-6798695", "R-HSA-8856825", "R-HSA-8856828", "R-HSA-8963693...

[ "REACTOME:R-CEL-432722", "REACTOME:R-CEL-8963693", "REACTOME:R-CEL-8980692", "REACTOME:R-CEL-9013026", "REACTOME:R-CEL-9013149", "REACTOME:R-CEL-9013404", "REACTOME:R-CEL-9013406", "REACTOME:R-CEL-9013407", "REACTOME:R-CEL-9013408", "REACTOME:R-CEL-9013423", "REACTOME:R-DDI-6798695", "REACTOME...

94

[ "1amp", "1cp6", "1cp7", "1cx8", "1de4", "1f2o", "1f2p", "1ft7", "1igb", "1lok", "1qq9", "1rtq", "1suv", "1tf8", "1tf9", "1tkf", "1tkh", "1tkj", "1txr", "1xbu", "1xjo", "1xry", "1z8l", "2afm", "2afo", "2afs", "2afu", "2afw", "2afx", "2afz", "2anp", "2c6c"...

250

[ "PUB00003579" ]

[ "7674922" ]

[ "Evolutionary families of metallopeptidases." ]

[ 1995 ]

1

[]

[ "IPR037457", "IPR048024" ]

0

2

0

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

[ 1005, 38524, 38077, 107, 783 ]

5

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

[ 28, 9, 31, 51, 2, 48, 24, 8, 19, 45, 6, 3, 50 ]

13

true

Domain

Peptidase M28

Peptidase_M28

6

IPR007485

7,485

LPS-assembly lipoprotein LptE

LPS_assembly_LptE

Family

12,349

false

The cell envelope of Gram-negative bacteria consists of an inner (IM) and an outer membrane (OM) separated by an aqueous compartment, the periplasm, which contains the peptidoglycan layer. The OM is an asymmetric bilayer, with phospholipids in the inner leaflet and lipopolysaccharides (LPS) facing outward [ , ]. The OM...

[ "GO:0043165", "GO:0019867" ]

[ "Gram-negative-bacterium-type cell outer membrane assembly", "outer membrane" ]

[ "biological_process", "cellular_component" ]

2

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

[ "MF_01186", "PF04390", "PTHR38098" ]

[ "LPS_assembly_LptE", "LptE", "" ]

[ 6115, 12263, 6321 ]

3

[ "GP", "GP" ]

[ "GenProp1079", "GenProp1115" ]

[ "GP:GenProp1079", "GP:GenProp1115" ]

2

[ "2jxp", "2n8x", "2r76", "3bf2", "4kwy", "4n4r", "4nhr", "4q35", "4rh8", "4rhb", "5iv8", "5iv9", "5iva", "5ixm", "5tse", "7omm", "7rxu", "8h1r", "8h1s", "9fz5", "9i92", "9i93", "9i94", "9i95", "9i96", "9i97", "9i98", "9kn3", "9q8n" ]

29

[ "PUB00028103", "PUB00053159", "PUB00053160", "PUB00053161", "PUB00053162", "PUB00053163", "PUB00053164", "PUB00053165", "PUB00053166", "PUB00053167", "PUB00059197", "PUB00059198" ]

[ "12045108", "16357861", "10574995", "8606190", "11278265", "8809774", "9575204", "18424520", "16861298", "15192148", "21705335", "21257909" ]

[ "Lipopolysaccharide endotoxins.", "Advances in understanding bacterial outer-membrane biogenesis.", "The activity of a putative polyisoprenol-linked sugar translocase (Wzx) involved in Escherichia coli O antigen assembly is independent of the chemical structure of the O repeat.", "An O-antigen processing func...

[ 2002, 2006, 1999, 1996, 2001, 1996, 1998, 2008, 2006, 2004, 2011, 2011 ]

12

[]

0

null

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

[ 12089, 16, 244 ]

3

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

LPS-assembly lipoprotein LptE

LPS_assembly_LptE

9

IPR007486

7,486

Inner membrane protein YebE

YebE

Family

5,281

false

Some family members may be secreted or integral membrane proteins. This entry includes the inner membrane protein YebE from Escherichia coli.

[]

0

[ "PFAM", "CDD" ]

[ "PF04391", "cd07178" ]

[ "DUF533", "terB_like_YebE" ]

[ 5281, 4891 ]

2

[]

0

[]

0

[]

0

[]

0

null

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

[ 5247, 15, 19 ]

3

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Inner membrane protein YebE

YebE

1

IPR007487

7,487

ABC transporter, tyrosine-binding protein-like

ABC_transpt-TYRBP-like

Family

14,131

false

ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These region...

[]

0

[ "PFAM", "PANTHER", "CDD" ]

[ "PF04392", "PTHR35271", "cd06325" ]

[ "ABC_sub_bind", "", "PBP1_ABC_unchar_transporter" ]

[ 13185, 13269, 10190 ]

3

[]

0

[ "3lft", "3lkv", "5z6v", "6hni", "6hnj", "6hnk", "6k1w", "6k1x", "6k1y", "8wgk", "8wgl", "8wxm", "8wxn", "8wxo", "8wxp" ]

15

[ "PUB00152829" ]

[ "29867812" ]

[ "Convergent Loss of ABC Transporter Genes From Clostridioides difficile Genomes Is Associated With Impaired Tyrosine Uptake and p-Cresol Production." ]

[ 2018 ]

1

[]

[ "IPR047776" ]

0

1

0

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

[ 34, 13910, 14, 173 ]

4

[]

0

true

Family

ABC transporter, tyrosine-binding protein-like

ABC_transpt-TYRBP-like

8

IPR007488

7,488

Protein of unknown function DUF535

DUF535

Family

4,130

false

Family member Shigella flexneri VirK ( ) is a virulence protein required for the expression, or correct membrane localisation of IcsA (VirG) on the bacterial cell surface [ , ]. This family also includes Pasteurella haemolytica lapB ( ), which is thought to be membrane-associated.

[]

0

[ "PFAM", "PANTHER" ]

[ "PF04393", "PTHR38785" ]

[ "DUF535", "" ]

[ 4126, 4093 ]

2

[]

0

[]

0

[ "PUB00009979", "PUB00009980" ]

[ "1406277", "11115111" ]

[ "Identification and characterization of virK, a virulence-associated large plasmid gene essential for intercellular spreading of Shigella flexneri.", "The virulence plasmid pWR100 and the repertoire of proteins secreted by the type III secretion apparatus of Shigella flexneri." ]

[ 1992, 2000 ]

2

[]

0

null

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

[ 4121, 2, 7 ]

3

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Family

Protein of unknown function DUF535

DUF535

8

IPR007489

7,489

Regulator of chromosome segregation-like, C-terminal domain

RocS-like_C

Domain

903

false

This entry represents the C-terminal coiled-coil region found in proteins predominantly from Firmicutes, including Regulator of chromosome segregation from Streptococcus pneumoniae (RocS). RocS is required for cell division and chromosome segregation. It binds to DNA and is involved in segregating the origin of replica...

[]

0

[ "PFAM" ]

[ "PF04394" ]

[ "DUF536" ]

[ 903 ]

1

[]

0

[ "8csh" ]

1

[ "PUB00099934", "PUB00099935", "PUB00101944", "PUB00163197" ]

[ "21822904", "32240216", "31182798", "35907571" ]

[ "Sequencing and analysis of three plasmids from Lactobacillus casei TISTR1341 and development of plasmid-derived Escherichia coli-L. casei shuttle vectors.", "Nucleotide sequence and analysis of pRC12 and pRC18, two theta-replicating plasmids harbored by Lactobacillus curvatus CRL 705.", "RocS drives chromosome...

[ 2012, 2020, 2019, 2022 ]

4

[]

0

null

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

[ 898, 3, 2 ]

3

[]

0

true

Domain

Regulator of chromosome segregation-like, C-terminal domain

RocS-like_C

9

IPR007492

7,492

LytTR DNA-binding domain

LytTR_DNA-bd_dom

Domain

71,364

false

The LytTR domain is a DNA-binding, potential winged helix-turn-helix (wHTH) domain of about 100 amino acids, present in bacterial transcriptional regulators of the algR/agrA/lytR family. It is named after Bacillus subtilis LytT and Staphylococcus aureus lytR response regulators, involved in the regulation of cell autol...

[ "GO:0003677" ]

[ "DNA binding" ]

[ "molecular_function" ]

1

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

[ "PF04397", "PS50930", "SM00850" ]

[ "LytTR", "HTH_LYTTR", "LytTR" ]

[ 70798, 67190, 70416 ]

3

[ "PROSITEDOC" ]

[ "PDOC50930" ]

[ "PROSITEDOC:PDOC50930" ]

1

[ "3bs1", "3d6w", "4cbv", "4g4k", "4xqj", "4xqn", "4xqq", "4xxe", "4xyo", "4xyq" ]

10

[ "PUB00009981", "PUB00011095" ]

[ "12034833", "12367524" ]

[ "A novel type of conserved DNA-binding domain in the transcriptional regulators of the AlgR/AgrA/LytR family.", "The FxRxHrS motif: a conserved region essential for DNA binding of the VirR response regulator from Clostridium perfringens." ]

[ 2002, 2002 ]

2

[]

0

null

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

[ 70782, 60, 14, 27, 481 ]

5

[ "Escherichia coli (strain K12)" ]

[ 2 ]

1

true

Domain

LytTR DNA-binding domain

LytTR_DNA-bd_dom

6

IPR007493

7,493

Protein of unknown function DUF538

DUF538

Family

13,222

false

This family consists of several plant proteins of unknown function.

[]

0

[ "PFAM", "PANTHER" ]

[ "PF04398", "PTHR31676" ]

[ "DUF538", "" ]

[ 13220, 12766 ]

2

[]

0

[ "1ydu" ]

1

[]

0

[]

0

null

[ "Bacteria", "Eukaryota" ]

[ 2, 13220 ]

2

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

[ 81, 108, 129 ]

3

true

Family

Protein of unknown function DUF538

DUF538

5

IPR007494

7,494

Glutaredoxin 2, C-terminal

Glutaredoxin2_C

Domain

2,165

false

Glutaredoxins [ , , ], also known as thioltransferases (disulphide reductases), are small proteins of approximately one hundred amino-acid residues which utilise glutathione and NADPH as cofactors. Oxidized glutathione is regenerated by glutathione reductase. Together these components compose the glutathione system [ ]...

[]

0

[ "PFAM", "CDD" ]

[ "PF04399", "cd03199" ]

[ "Glutaredoxin2_C", "GST_C_GRX2" ]

[ 2165, 1524 ]

2

[]

0

[ "1g7o", "3ir4", "4ksm", "4kx4", "7d9l", "7dkp", "7dkr", "7tbs" ]

8

[ "PUB00000560", "PUB00001738", "PUB00002504", "PUB00005575", "PUB00014033", "PUB00015562", "PUB00019620", "PUB00023503", "PUB00030238", "PUB00080848", "PUB00080925", "PUB00080927" ]

[ "3286320", "3152490", "2668278", "1994586", "14713336", "14962389", "11453697", "9860827", "10493864", "9111025", "15706083", "15814611" ]

[ "Thioredoxin and glutaredoxin: small multi-functional redox proteins with active-site disulphide bonds.", "Thioredoxin and related proteins in procaryotes.", "Thioredoxin and glutaredoxin systems.", "Vaccinia virus encodes a protein with similarity to glutaredoxins.", "Glutaredoxins: glutathione-dependent r...

[ 1988, 1988, 1989, 1991, 2004, 2004, 2001, 1998, 1999, 1997, 2005, 2005 ]

12

[]

0

null

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

[ 1877, 281, 7 ]

3

[ "Escherichia coli (strain K12)" ]

[ 1 ]

1

true

Domain

Glutaredoxin 2, C-terminal

Glutaredoxin2_C

7

IPR007495

7,495

(Na+)-NQR maturation factor NqrM

NqrM

Family

2,721

false

The NqrM gene is often found adjacent to the nqr operons that encode (Na+)-NQR subunits. NqrM is a maturation factor of bacterial Na+-translocating NADH:quinone oxidoreductase, presumably involved in the delivery of Fe to form the (Cys)4[Fe] centre between subunits NqrD and NqrE. The four conserved Cys residues found i...

[]

0

[ "PFAM", "PANTHER" ]

[ "PF04400", "PTHR40691" ]

[ "NqrM", "" ]

[ 2695, 2630 ]

2

[]

0

[]

0

[ "PUB00077340" ]

[ "26644436" ]

[ "NqrM (DUF539) Protein is Required for Maturation of Bacterial Na+-translocating NADH:quinone Oxidoreductase." ]

[ 2015 ]

1

[]

0

null

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

[ 2698, 3, 20 ]

3

[]

0

true

Family

(Na+)-NQR maturation factor NqrM

NqrM

2

IPR007497

7,497

Interleukin-1 receptor-associated kinase 1-binding protein 1/DUF541

SIMPL/DUF541

Family

22,900

false

This entry represents a family of proteins from bacteria, archaea and animals, including Interleukin-1 receptor-associated kinase 1-binding protein 1 from mouse, which has been named SIMPL (signalling molecule that associates with mouse pelle-like kinase). SIMPL is a component of the IRAK1-dependent TNFRSF1A signaling ...

[]

0

[ "PFAM" ]

[ "PF04402" ]

[ "SIMPL" ]

[ 22900 ]

1

[]

0

[ "4hvz", "7c50", "7c51" ]

3

[ "PUB00009982", "PUB00010115", "PUB00101028" ]

[ "11207567", "11096118", "15485901" ]

[ "LaXp180, a mammalian ActA-binding protein, identified with the yeast two-hybrid system, co-localizes with intracellular Listeria monocytogenes.", "SIMPL is a tumor necrosis factor-specific regulator of nuclear factor-kappaB activity.", "Tumor necrosis factor alpha induction of NF-kappaB requires the novel coac...

[ 2000, 2001, 2004 ]

3

[]

[ "IPR016907", "IPR030312" ]

0

2

0

[ "Archaea", "Bacteria", "Eukaryota", "Siphoviridae sp. ctBLh2", "metagenomes" ]

[ 511, 20442, 1612, 1, 334 ]

5

[ "Danio rerio", "Escherichia coli (strain K12)", "Homo sapiens", "Mus musculus", "Rattus norvegicus" ]

[ 1, 1, 3, 2, 4 ]

5

true

Family

Interleukin-1 receptor-associated kinase 1-binding protein 1/DUF541

SIMPL/DUF541

9

IPR007498

7,498

Intermembrane transport protein PqiA-like

PqiA-like

Family

13,492

false

This family includes intermembrane transport proteins PqiA and YebS, which are components of transport pathways that contribute to membrane integrity [ ]. The promoter for the pqiA gene is inducible by paraquat, a superoxide radical-generating agent, and other known superoxide generators [ ].

[]

0

[ "PFAM" ]

[ "PF04403" ]

[ "PqiA" ]

[ 13492 ]

1

[]

0

[ "9n8w", "9n8x" ]

2

[ "PUB00009983", "PUB00089644" ]

[ "7751275", "27795327" ]

[ "Isolation of a novel paraquat-inducible (pqi) gene regulated by the soxRS locus in Escherichia coli.", "pqiABC and yebST, Putative mce Operons of Escherichia coli, Encode Transport Pathways and Contribute to Membrane Integrity." ]

[ 1995, 2017 ]

2

[]

[ "IPR005219" ]

0

1

0

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

[ 12824, 570, 98 ]

3

[ "Escherichia coli (strain K12)" ]

[ 2 ]

1

true

Family

Intermembrane transport protein PqiA-like

PqiA-like

1

IPR007499

7,499

Essential recombination function protein

ERF_bacteria_virus

Family

3,727

false

The DNA single-strand annealing proteins (SSAPs), such as RecT, Red-beta, ERF and Rad52, function in RecA-dependent and RecA-independent DNA recombination pathways. This family includes proteins related to ERF [ ].

[]

0

[ "PFAM" ]

[ "PF04404" ]

[ "ERF" ]

[ 3727 ]

1

[]

0

[]

0

[ "PUB00009986" ]

[ "11914131" ]

[ "Classification and evolutionary history of the single-strand annealing proteins, RecT, Redbeta, ERF and RAD52." ]

[ 2002 ]

1

[]

0

null

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

[ 2577, 37, 10, 933, 170 ]

5

[]

0

true

Family

Essential recombination function protein

ERF_bacteria_virus

8

IPR007501

7,501

Protein of unknown function DUF531

DUF531

Family

161

false

This is a family of hypothetical archaeal proteins including Uncharacterized protein MJ0224.

[]

0

[ "PFAM", "PIRSF" ]

[ "PF04407", "PIRSF006006" ]

[ "DUF531", "UCP006006" ]

[ 161, 133 ]

2

[]

0

[]

0

[]

0

[]

0

null

[ "Methanobacteriati", "marine metagenome" ]

[ 160, 1 ]

2

[]

0

true

Family

Protein of unknown function DUF531

DUF531

2