SII-SWORD/CoKE huggingface dataset:
Rab3GAP catalytic subunit, C-terminal (Rab3GAP1_C)
Type: Domain

This entry represents the C-terminal domain found in the Rab3 GTPase-activating protein catalytic subunit (Rab3GAP1) predominantly in animals.

Small G proteins of the Rab family are regulators of intracellular vesicle traffic. Their rate of GTP hydrolysis is enhanced by specific GTPase-activating proteins (GAPs) that switch G proteins to their inactive form . Rab3GAP1 (catalytic subunit) has been shown to form a heterodimeric complex with Rab3GAP2 (the regulatory subunit), and this complex acts as a guanosine nucleotide exchange factor for Rab3 subfamily (RAB3A, RAB3B, RAB3C and RAB3D). Rab3GAP complex may participate in neurodevelopmental processes such as proliferation, migration and differentiation before synapse formation, and non-synaptic vesicular release of neurotransmitters . It also activates Rab18 and promotes autolysosome maturation through the Vps34 Complex I .

Mutations in the Rab3GAP1/2 gene cause Warburg micro syndrome (WMS), a hereditary autosomal neuromuscular disorder .
Galactofuranosyltransferase-2, C-terminal (GlfT2_C)
Type: Domain

This entry represents the C-terminal domain of the enzyme Galactofuranosyltransferase GlfT2 (

) predominantly found in bacteria of the class Actinomycetia. This protein is involved in the synthesises of the galactan portion of the peptidoglycan complex of the mycobacteria cell wall . This domain consists of eight α-helices, five of which immediately follow the glycosyltransferase (GT) domain. Three helices at the most C-terminal region of the polypeptide chain wrap around these core helices to complete the domain. The surface-exposed hydrophobic residues may also contribute to the specificity and affinity binding of UDP donors . As the activity of this protein contributes to an essential process for mycobacterial viability, interest in this enzyme as potencial therapeutic target has increased in recent years .
Rab3GAP catalytic subunit (Rab3GAP1)
Type: Family

Small G proteins of the Rab family are regulators of intracellular vesicle traffic. Their rate of GTP hydrolysis is enhanced by specific GTPase-activating proteins (GAPs) that switch G proteins to their inactive form . Rab3GAP1 (catalytic subunit) has been shown to form a heterodimeric complex with Rab3GAP2 (the regulatory subunit), and this complex acts as a guanosine nucleotide exchange factor for Rab3 subfamily (RAB3A, RAB3B, RAB3C and RAB3D). Rab3GAP complex may participate in neurodevelopmental processes such as proliferation, migration and differentiation before synapse formation, and non-synaptic vesicular release of neurotransmitters . It also activates Rab18 and promotes autolysosome maturation through the Vps34 Complex I .

Mutations in the Rab3GAP1/2 gene cause Warburg micro syndrome (WMS), a hereditary autosomal neuromuscular disorder .
Protein of unknown function DUF6059 (DUF6059)
Type: Family

This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0001922) is described by MIBiG as an example of the following biosynthetic class, polyketide. This family includes a protein from the isoindolinomycin biosynthetic gene cluster from Streptomyces sp. SoC090715LN-16 and appears to be predominantly found in Actinobacteria .
Protein of unknown function DUF6060 (DUF6060)
Type: Family

This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0001035) is described by MIBiG as an example of the following biosynthetic classes, NRP (non-ribosomal peptide), polyketide and other (Aminocoumarin). This family includes a protein from the pneumocandin B0 biosynthetic gene cluster from Glarea lozoyensis ATCC 20868 and appear to be predominantly found in fungi .
POU domain, class 2, transcription factor 1, C-terminal (POU2F1_C)
Type: Domain

This domain represents the C-terminal region of the POU2F1 (POU domain, class 2 subfamily, transcription factor 1), which is localised adjacent to the homeobox domain. This transcription factor activates the promoters of the genes for some small nuclear RNAs (snRNA) and of genes such as those for histone H2B and immunoglobulins . Members of this family are found in chordates.
BTB/POZ domain-containing protein KCTD18, C-terminal domain (KCTD18_C)
Type: Domain

This entry represents the C-terminal region of BTB/POZ domain-containing protein KCTD18. This domain is highly variable among the BTB domain-containing KCTD proteins and it has been proposed that it could be used to bind and recruit diverse cellular proteins destined for different processes such as ubiquitination and degradation or regulation of G-protein coupled receptors .
Protein of unknown function DUF6061 (DUF6061)
Type: Family

This family of proteins is functionally uncharacterised. This family of proteins is mainly found in Firmicutes. Some members of this family are predicted to be part of a toxin-antitoxin system.
Protein of unknown function DUF6062 (DUF6062)
Type: Family

This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria and archaea. This family contains two repeated domains that each contain a conserved CXXC and GXCXXH sequence motif. This suggests that these proteins are likely to be metal binding.
Protein of unknown function DUF6063 (DUF6063)
Type: Family

This family of proteins is functionally uncharacterised. This family of proteins is found primarily in bacteria. They contain a central predicted transmembrane helix.
Protein of unknown function DUF6064 (DUF6064)
Type: Family

This family of integral membrane proteins is functionally uncharacterised. This family of proteins is found mostly in Proteobacteria and Bacteroidetes.
Protein of unknown function DUF6065 (DUF6065)
Type: Family

This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0001418) is described by MIBiG as an example of the following biosynthetic classes, NRP (non-ribosomal peptide) and polyketide. This family includes a protein from the myxochromide D biosynthetic gene cluster from Myxobacteria .
Protein of unknown function DUF6066 (DUF6066)
Type: Family

This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0001418) is described by MIBiG as an example of the following biosynthetic classes, NRP (non-ribosomal peptide) and polyketide. This family includes a protein from the myxochromide D biosynthetic gene cluster from Hyalangium minutum and appears to be predominantly found in Cystobacterineae .
Glycoside hydrolase 123-like, N-terminal domain (GH123-like_N)
Type: Domain

This entry, formerly known as DUF6067, represents a domain found at the N-terminal domain of some glycoside hydrolase family 123 (GH123) proteins. This domain folds into a twisted β-sandwich that consists of two 5-stranded β-sheets, two small β-strands and four small α-helices.
Protein of unknown function DUF6068 (DUF6068)
Type: Family

This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0001902) is described by MIBiG as an example of the following biosynthetic classes, NRP (non-ribosomal peptide) and polyketide. This family includes a protein from the bengamide biosynthetic gene cluster from Myxococcus virescens and appears to be predominantly found in Cystobacterineae .
Protein of unknown function DUF6069 (DUF6069)
Type: Family

This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0001769) is described by MIBiG as an example of the following biosynthetic class, polyketide. This family includes a protein from the family saquayamycin A biosynthetic gene cluster from Streptomyces sp. and appears to be predominantly found in Actinobacteria .
Protein of unknown function DUF6070 (DUF6070)
Type: Family

This family of proteins is functionally uncharacterised. This family of proteins is found in Firmicutes. There are two conserved sequence motifs: PEV and DGT.
Protein of unknown function DUF6071 (DUF6071)
Type: Family

This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0001065) is described by MIBiG as an example of the following biosynthetic class, polyketide. This family contains a protein from the herboxidiene biosynthetic gene cluster from Streptomyces chromofuscus .
Chordin-like protein 1/2, C-terminal (CHRDL_1/2_C)
Type: Domain

This is the C-terminal domain of Chordin-like proteins 1 and 2 (CHRDL1/2). CHRDL1 antagonizes the function of BMP4 by binding to it and preventing its interaction with receptors . CHRDL2 inhibit bone morphogenetic proteins (BMPs) activity by blocking their interaction with their receptor . CHRDL2 may play a role during myoblast and osteoblast differentiation and maturation . It's worth noting that there are different results regarding its binding partners; according to , CHRDL2 interacts with INHBA but not BMP2, BMP4 and BMP6.
Chordin-like protein 1/2 (CHRDL1/2)
Type: Family

This entry includes chordin-like protein 1/2 (CHRDL1/2). CHRDL1 antagonizes the function of BMP4 by binding to it and preventing its interaction with receptors . CHRDL2 inhibit bone morphogenetic proteins (BMPs) activity by blocking their interaction with their receptor . CHRDL2 may play a role during myoblast and osteoblast differentiation and maturation . It's worth noting that there are different results regarding its binding partners; according to , CHRDL2 interacts with INHBA but not BMP2, BMP4 and BMP6.

Bone is composed of an organic matrix that is principally collagenous and is mineralised with inorganic crystals of hydroxyapatite. Demineralisation of the bone results in a demineralised bone matrix . In 1965, Urist M.R demonstrates the decalcified bone matrix (DBM) can induce ectopic bone/cartilage formation . The morphogens in DBM that induce such skeletogenesis were named as bone morphogenetic proteins (BMPs) . Since then, more than 20 members of BMPs have been identified. BMPs are potent effectors in almost all crucial biological events, such development, maintenance and regeneration of organs/tissues .
Protein of unknown function DUF6072 (DUF6072)
Type: Family

This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0000967) is described by MIBiG as an example of the following biosynthetic classes, NRP (non-ribosomal peptide) and polyketide. This family includes a protein from the calyculin A biosynthetic gene cluster from uncultured Candidatus Entotheonella sp. and appears to be predominantly found in bacteria.
Protein of unknown function DUF6073 (DUF6073)
Type: Family

This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0001804) is described by MIBiG as an example of the following biosynthetic class, polyketide. This family includes a protein from the tiancimycin biosynthetic gene cluster from Streptomyces sp. CB03234 and appears to be predominantly found in bacteria .
Protein of unknown function DUF6074 (DUF6074)
Type: Family

This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0001765) is described by MIBiG as an example of the following biosynthetic class, saccharide. This family includes a protein from the salecan biosynthetic gene cluster from Agrobacterium tumefaciens and appears to be predominantly found in Rhizobiales .
Protein of unknown function DUF6075 (DUF6075)
Type: Family

This family of proteins is functionally uncharacterised. This family of proteins is found primarily in Firmicute bacteria. Proteins in this family are typically between 130 and 155 amino acids in length. There is a conserved AFNL sequence motif.
Protein of unknown function DUF6076 (DUF6076)
Type: Family

This family of proteins is functionally uncharacterised. This family of proteins is primarily found in Firmicute bacteria. These proteins contain 4 conserved cysteines suggestive of a zinc-binding motif.
Protein of unknown function DUF6077 (DUF6077)
Type: Family

This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria.
Protein of unknown function DUF6078 (DUF6078)
Type: Family

This family of proteins is functionally uncharacterised. This family of proteins is found in Bacteroidetes bacteria. This family contains 4 conserved cysteines towards the N terminus which may form a zinc-binding motif.
Domain of unknown function DUF6079 (DUF6079)
Type: Domain

This entry represents a domain of unknown function found in prokaryotic proteins. It covers the whole length of the protein in many members of this group, which contain a P-loop domain at their N terminus.
Protein of unknown function DUF6080 (DUF6080)
Type: Family

This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria.
Protein of unknown function DUF6081 (DUF6081)
Type: Family

This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0001964) is described by MIBiG as an example of the following biosynthetic class, polyketide. This family includes a protein from the alkylpyrone-407 biosynthetic gene cluster from Cystobacterineae bacterium .
Protein of unknown function DUF6082 (DUF6082)
Type: Family

This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0000703) is described by MIBiG as an example of the following biosynthetic class, saccharide. This family includes a protein from the kanamycin biosynthetic gene cluster from Streptomyces kanamyceticus and appears to be predominantly found in Actinobacteria .
Protein of unknown function DUF6083 (DUF6083)
Type: Family

This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC00001735) is described by MIBiG as an example of the following biosynthetic class, other. This family includes a protein from the pentostatine biosynthetic gene cluster from Streptomyces antibioticus and appears to be predominantly found in Streptomyces .
Protein of unknown function DUF6084 (DUF6084)
Type: Family

This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0001065) is described by MIBiG as an example of the following biosynthetic class, polyketide. This family includes a protein from the herboxidiene biosynthetic gene cluster from Streptomyces chromofuscus and appears to be predominantly found in Actinobacteria .
Protein of unknown function DUF6085 (DUF6085)
Type: Family

This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0001905) is described by MIBiG as an example of the following biosynthetic class, polyketide. This family includes a protein from the violapyrone B biosynthetic gene cluster from Streptomyces somaliensis and appears to be predominantly found in Actinobacteria and Caudovirales bacteriophages .
Protein of unknown function DUF6086 (DUF6086)
Type: Family

This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0000721) is described by MIBiG as an example of the following biosynthetic class, saccharide. This family includes a protein from the tobramycin biosynthetic gene cluster from Streptoalloteichus tenebrarius and appears to be predominantly found in Actinobacteria .
Protein of unknown function DUF6087 (DUF6087)
Type: Family

This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0000703) is described by MIBiG as an example of the following biosynthetic class, saccharide. This family includes a protein from the kanamycin biosynthetic gene cluster from Streptomyces kanamyceticus .
Sorting nexin 8/Mvp1, BAR domain (Snx8_BAR_dom)
Type: Domain

This is the BAR (Bin/amphiphysin/Rvs) domain of Sortin nexin 8 (Snx8), which can sense, stabilise and induce membrane curvature . These proteins are involved in intracellular protein transport from early endosomes to the trans-Golgi network . Its yeast counterpart, Mvp1 is required for sorting proteins to the vacuole .
Stage III sporulation protein AA, AAA+ ATPase domain (Spore_III_AA_AAA+_ATPase)
Type: Domain

This entry represents the AAA+ ATPase domain found in Sporulation stage III protein AA from Bacillus subtilis.

The AAA+ superfamily of ATPases is found in all kingdoms of living organisms where they participate in diverse cellular processes including membrane fusion, proteolysis and DNA replication. Although the terms AAA+ and AAA are often used loosely and interchangeably, the classical AAA family members are distinguished by their possession of the SRH region in the AAA module. Many AAA+ proteins are involved in similar processes to those of AAA proteins (facilitation of protein folding and unfolding, assembly or disassembly of proteins complexes, protein transport and degradation), but others function in replication, recombination, repair and transcription. For a review see .
START-like domain (START_2)
Type: Domain

This entry represents the START-like domain distantly related to the START domain.

START (StAR-related lipid-transfer) is a lipid-binding domain in StAR, HD-ZIP and signalling proteins . StAR (Steroidogenic Acute Regulatory protein) is a mitochondrial protein that is synthesised in response to luteinising hormone stimulation . Expression of the protein in the absence of hormone stimulation is sufficient to induce steroid production, suggesting that this protein is required in the acute regulation of steroidogenesis. Representatives of the START domain family have been shown to bind different ligands such as sterols (StAR protein) and phosphatidylcholine (PC-TP). Ligand binding by the START domain can also regulate the activities of other domains that co-occur with the START domain in multidomain proteins such as Rho-gap, the homeodomain, and the thioesterase domain .
E3 ubiquitin-protein ligase RKP, N-terminal (RKP_N)
Type: Domain

This domain represents the N-terminal region of the E3 ubiquitin-protein ligase RKP and other B30.2/SPRY domain-containing proteins from plants.

RKP is an E3 ubiquitin-protein ligase that promotes the ubiquitination and proteasomal degradation of KRP1 and KRP2 .
Protein of unknown function DUF6088 (DUF6088)
Type: Family

This family of proteins is functionally uncharacterised. This family of proteins is found primarily in bacteria. This family appears to be distantly related to AbiEi antitoxin (

) suggesting proteins in this family may be an antitoxin component of a toxin/antitoxin system.
ACT domain pair (ACT_dom_pair)
Type: Domain

This entry represents a pair of ACT domains. These domains bind to amino acids and often form regulatory subunits of enzymes. Proteins containing this domain pair are found in bacteria and archaea.
BTB/POZ domain-containing protein KCTD4, C-terminal (KCTD4_C)
Type: Domain

This entry represents the C-terminal region of BTB/POZ domain-containing protein KCTD4. This domain is highly variable among the BTB domain-containing KCTD proteins and it has been proposed that it could play a role in binding or recruiting diverse protein targets involved in different cellular processes, such us ubiquitination, cell proliferation or control of G-protein coupled receptors, among others .
Type IX secretion system protein PorV (PorV)
Type: Domain

This entry represents the PorV protein. The Bacteroidete T9SS contains at least 15 proteins. PorQ, PorU, PorV and PorZ form a cell surface-exposed attachment complex that proteolytically removes the substrate CTD following transport and covalently links some substrate proteins to a lipopolysaccharide anchor. A pool of PorV proteins in the outer membrane is thought to shuttle substrate proteins from the translocon to the attachment complex. The PorV protein has a membrane β barrel topology .
LETM2, N-terminal (LETM2_N)
Type: Domain

This entry represents the N-terminal region of the mammal LETM1-domain-containing protein LETM2, a mitochondrial protein that is expressed preferentially in spermatocytes and spermatozoa during developmental stages from spermatocyte to spermatozoon. LETM2 might contribute to the reorganisation of the inner and cristae membranes during spermatogenesis. Despite its name, it does not contain an EF-hand domain as LETM1, but it contains a putative leucine zipper coiled coil domain .
Domain of unknown function DUF6089 (DUF6089)
Type: Domain

This domain can be found in a family of membrane bound β barrel proteins mostly from Bacteroidetes bacteria.
E3 ubiquitin-protein ligase RNF152, C-terminal (RNF152_C)
Type: Domain

This entry represents the C-terminal domain of the E3 ubiquitin ligase RNF152. This hydrophobic transmembrane domain is responsible for the lysosomal localisation of the protein as well as its ubiquitination activity. RNF152 polyubiquitinates several proteins and itself, which leads to proteasome degradation. It has been shown that this protein has also pro-apoptotic activity, dependent on its RING finger and transmembrane domains . In addition, the transmembrane domain of RNF152 is necessary for negative regulation of the mTORC1 pathway in an amino-acid-sensitive manner, as it mediates RNF152-RagA interaction and RagA ubiquitination .
Helix-turn-helix domain, Actinobacteria-type (HTH_58_Actinobacteria-type)
Type: Domain

This helix-turn-helix domain can be found in proteins mostly from Actinobacteria.
Putative acyltransferase ACT14924-like, acyltransferase domain (ACT14924-like_Acyltransf_dom)
Type: Domain

This entry represents the acyltransferase domain found in a group of putative phospholipid/glycerol acyltransferases such as the Pectobacterium carotovorum subsp. carotovorum PC1 locus ACT14924. Proteins containing this domain belong to the lysophospholipid acyltransferase (LPLAT) superfamily.
CRISPR-associated protein Cas6, N-terminal domain superfamily (CRISPR-assoc_prot_Cas6_N_sf)
Type: Homologous_superfamily

The CRISPR-Cas system is a prokaryotic defence mechanism against foreign genetic elements. The key elements of this defence system are the Cas proteins and the CRISPR RNA.

Cas6 is a member of the RAMP (repeat-associated mysterious protein) superfamily . It is among the most widely distributed Cas proteins and is found in both bacteria and archaea . Cas6 functions in the generation of CRISPR-derived guide RNAs for invader defense in prokaryotes . The structure of this protein showed it adopts a tandem ferredoxin/RRM fold .

This superfamily represents the N-terminal domain of Cas6 proteins, which has a ferredoxin-like fold .
DcaP outer membrane protein (DcaP)
Type: Family

This entry includes DcaP which is the most abundant outer membrane channel protein in Acinetobacter baumannii. X-ray crystallography reveals a trimeric porin-like structure and suggests dicarboxylic acids as potential substrates .
Protein of unknown function DUF6090 (DUF6090)
Type: Family

This family of proteins is functionally uncharacterised. Proteins in this family are primarily found in Bacteroidetes.
Protein of unknown function DUF6178 (DUF6178)
Type: Family

This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0001091) is described by MIBiG as an example of the NRP (non-ribosomal peptide) and polyketide biosynthetic classes. It includes a member from the corallopyronin biosynthetic gene cluster from Corallococcus coralloides . This family appears to be predominantly found in proteobacteria.
Protein of unknown function DUF6179 (DUF6179)
Type: Family

This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0001520) is described by MIBiG as an example of the polyketide biosynthetic class. It includes a member from the aurantinin B biosynthetic gene cluster from Bacillus subtilis . This family appears to be predominantly found in Firmicutes.
Protein of unknown function DUF6180 (DUF6180)
Type: Family

This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0000385) is described by MIBiG as an example of the NRP (non-ribosomal peptide) biosynthetic class. It includes a member from the lysobactin biosynthetic gene cluster from Lysobacter sp. ATCC 53042 .
Protein of unknown function DUF6181 (DUF6181)
Type: Family

This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0000703) is described by MIBiG as an example of the saccharide biosynthetic class. It includes a member from the kanamycin biosynthetic gene cluster from Streptomyces kanamyceticus .