SII-SWORD/CoKE huggingface dataset:
Pfam PF01501: Glycosyl transferase family 8 (family)
This family includes enzymes that transfer sugar residues to donor molecules. Members of this family are involved in lipopolysaccharide biosynthesis and glycogen synthesis. This family includes Lipopolysaccharide galactosyltransferase [swissprot:P27128], lipopolysaccharide glucosyltransferase 1 [swissprot:P27129], and glycogenin glucosyltransferase [swissprot:P46976].
Pfam PF03172: HSR domain (domain)
The Sp100 protein is a constituent of nuclear domains, also known as nuclear dots (NDs). An ND-targeting region that coincides with a homodimerization domain was mapped in Sp100. Sequences similar to the Sp100 homodimerization/ND-targeting region occur in several other proteins and constitute a novel protein motif, termed HSR domain (for homogeneously-staining region). The HSR domain has also been named ASS (AIRE, Sp-100 and Sp140). This domain is usually found at the amino terminus of proteins that contain a SAND domain [pfam:PF01342].
Pfam PF20203: Domain of unknown function (DUF6565) (domain)
This domain is found in uncharacterised proteins from Bacteroidetes and its function is unknown. It is approximately 60 amino acids in length. It contains a conserved motif DxxxW and a highly conserved tyrosine residue.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF12784: PD-(D/E)XK nuclease family transposase (domain)
Members of this family belong to the PD-(D/E)XK nuclease superfamily. These proteins are transposase proteins.
Pfam PF21236: 26S proteasome regulatory subunit 7, OB domain (domain)
This is the OB domain from 26S proteasome regulatory subunit 7 (PRS7, also known as PSMC2, Rpt1 or MSS1), a component of the 19S proteasome cap. These are one of six ATPases of the regulatory particle that form a heterohexameric ring. This domain mediates interactions with USP14 or Ubp6.
Pfam PF07453: NUMOD1 domain (domain)
This domain probably represents a DNA-binding helix-turn-helix based on its similarity to other families (Bateman A pers obs).
Pfam PF14687: Domain of unknown function (DUF4460) (family)
This domain family is found in eukaryotes, and is typically between 103 and 119 amino acids in length. There is a conserved HPD sequence motif. There are two completely conserved residues (N and F) that may be functionally important.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF11014: Protein of unknown function (DUF2852) (family)
This bacterial family of proteins has no known function.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF20023: Wolframin Sel1-like repeat (repeat)
N-terminal Sel1-like repeats found in the wolframin protein. This region has been linked to calmodulin-binding, suggesting these repeats may mediate a protein interaction.
Pfam PF15062: Haemopoietic lineage transmembrane helix (family)
ADP-ribosylation factor-like protein 6-interacting protein 6 (ARP6) is a transmembrane helix present in the J2E erythro-leukaemic cell line, but not its myeloid variants. In tissues, ARL-6 mRNA was most abundant in brain and kidney. While ARL-6 protein was predominantly cytosolic, it is known to bind to SEC61-beta subunit of a protein conducting channel SEC61p.
Pfam PF13524: Glycosyl transferase-like (domain)
This entry represents a glycosyl transferase-like domain found in a group of bacterial proteins such as Spore protein YkvP and CgeB.
Pfam PF15720: Domain of unknown function (DUF4675) (family)
This family of proteins is found in eukaryotes. Proteins in this family are approximately 190 amino acids in length.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF02049: Flagellar hook-basal body complex protein FliE (family)
Four genes from the major Bacillus subtilis chemotaxis locus have been shown to encode proteins that are similar to the Salmonella typhimurium FlgB, FlgC, FlgG and FliF proteins; a further gene product is similar to the Escherichia coli FliE protein . All of these proteins are thought to form part of the hook-basal body complex of the bacterial flagella . The FlgB, FlgC and FlgG proteins are components of the proximal and distal rods; FliF forms the M-ring that anchors the rod assembly to the membrane; but the role of FliE has not yet been determined . The similarity between the proteins in these two organisms suggests that the structures of the M-ring and the rod may be similar . Nevertheless, some differences in size and amino acid composition between some of the homologues suggest the basal body proteins may be organised slightly differently within B. subtilis .

From gel electrophoresis and autoradiography of 35S-labelled S. typhimurium hook-basal body complexes and the deduced number of sulphur-containing residues in FliE, the stoichiometry of the protein in the hook-basal body complex has been estimated to be about nine subunits . FliE does not undergo cleavage of a signal peptide, nor does it show any similarity to the axial components like the rod or hook proteins, which are thought to be exported by the flagellum-specific export pathway . On this evidence, it has been suggested that FliE may be in the vicinity of the MS ring, perhaps acting as an adaptor protein between ring and rod substructures .
Pfam PF04612: Type II secretion system (T2SS), protein M (family)
This family of membrane proteins consists of Type II secretion system protein M sequences from several Gram-negative (diderm) bacteria. The precise function of these proteins is unknown, though in Vibrio cholerae, the T2SM (EpsM) protein interacts with the T2SL (EpsL) protein, and also forms homodimers.
Pfam PF19604: Family of unknown function (DUF6109) (family)
This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0000069) is described by MIBiG as an example of the following biosynthetic class, polyketide. It includes a member from the gephyronic acid biosynthetic gene cluster from Archangium  violaceum Cb vi76 and appears to be predominantly found in  bacteria.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF21754: Probable sensor domain DacZ_A (domain)
This is a probable sensor domain found at the N-terminal of archaeal diadenylate cyclases, which are typically followed by the DAC ([pfam:PF02457]) domain. It may consist of four alpha-helices and four beta-strands according to structure predictions. DacZ_A is distantly related to PK_C ([pfam:PF02887]), DacZ_N ([pfam:PF19294]) and DACZ_P.
Pfam PF12690: Intracellular proteinase inhibitor (domain)
This is a bacterial domain which has been named BsuPI in Bacillus subtilis.  This domain is found in [swissprot:P39804], where it has been suggested to regulate the major intracellular proteinase (ISP-1) activity in vivo.  The structure of proteins in this family adopt an Ig-like fold.
Pfam PF23278: Piwi, N-terminal domain (domain)
This domain is found at the N-terminal of Protein piwi from Drosophila melanogaster and similar animal proteins. Piwi silences transposons in the nucleus by facilitating heterochromatin formation at target transposon loci. This protein consists of four domains: N (this entry), PAZ ([pfam:PF02170]), MID and PIWI ([pfam:PF02171]). This domain forms an antiparallel beta-sheet and an alpha-helix packed on one side.
Pfam PF07703: Alpha-2-macroglobulin bait region domain (domain)
Alpha-2-macroglobulins (A2Ms) are plasma proteins that trap and inhibit a broad range of proteases and are major components of the eukaryotic innate immune system. However, A2M-like proteins were identified in pathogenically invasive bacteria and species that colonize higher eukaryotes. This domain is found in eukaryotic and bacterial proteins. In human A2Ms, this domain encompasses macroglobulin-like domain MG5 and 6 including bait region. In Salmonella enterica ser A2Ms, this domain encompasses MG7 and MG8 including the bait region. The Bait region is cleaved by proteases, followed by a large conformational change that blocks the target protease within a cage-like complex. This model of protease entrapment is recognised as the Venus flytrap mechanism.
Wikipedia: α2-Macroglobulin (α2M) or alpha-2-macroglobulin is a large plasma protein found in the blood. It is mainly produced by the liver, and also locally synthesized by macrophages, fibroblasts, and adrenocortical cells. In humans it is encoded by the A2M gene.
Pfam PF13895: Immunoglobulin domain (domain)
This domain contains immunoglobulin-like domains.
Wikipedia: The immunoglobulin domain, also known as the immunoglobulin fold, is a type of protein domain that consists of a 2-layer sandwich of 7-9 antiparallel β-strands arranged in two β-sheets with a Greek key topology, consisting of about 125 amino acids.
Pfam PF20459: Family of unknown function (DUF6712) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are typically between 270 and 340 amino acids in length.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF07349: Protein of unknown function (DUF1478) (family)
This family consists of several hypothetical Sapovirus proteins of around 165 residues in length. The function of this family is unknown.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF03819: MazG nucleotide pyrophosphohydrolase domain (domain)
This domain is about 100 amino acid residues in length. It is found in the MazG protein from E. coli. It contains four conserved negatively charged residues that probably form an active site or metal binding site. This domain is found in isolation in some proteins as well as associated with [pfam:PF00590]. This domain is clearly related to [pfam:PF01503] another pyrophosphohydrolase involved in histidine biosynthesis. This family may be structurally related to the NUDIX domain [pfam:PF00293] (Bateman A pers. obs.).
Pfam PF07366: SnoaL-like polyketide cyclase (domain)
This family includes SnoaL a polyketide cyclase involved in nogalamycin biosynthesis. This family was formerly known as DUF1486.  The proteins in this family adopt a distorted alpha-beta barrel fold.  Structural data together with site-directed mutagenesis experiments have shown that SnoaL has a different mechanism to that of the classical aldolase for catalysing intramolecular aldol condensation.
Pfam PF02043: Bacteriochlorophyll C binding protein (family)
Chlorosomes, which are attached to the inner surface of the cytoplasmic membrane, consist of four polypeptides and associated pigments and lipids. The principal light-harvesting pigment of the green filamentous bacterium Chloroflexus aurantiacus is bacteriochlorophyll (Bchl) c. This pigment is either bound to, or constrained by, a small approximately 80-residue polypeptide designated Bchlc-binding protein. In C. aurantiacus, a C-terminal extension is believed to play a role in proper incorporation of the protein during chlorosome assembly . The protein has a high degree of similarity to Bchlc-binding proteins of other photosynthetic bacteria.
Wikipedia: A chlorosome is a photosynthetic antenna complex found in green sulfur bacteria (GSB) and many green non-sulfur bacteria (GNsB), together known as green bacteria. They differ from other antenna complexes by their large size and lack of protein matrix supporting the photosynthetic pigments. Green sulfur bacteria are a group of organisms that generally live in extremely low-light environments, such as at depths of 100 metres in the Black Sea. The ability to capture light energy and rapidly deliver it to where it needs to go is essential to these bacteria, some of which see only a few photons of light per chlorophyll per day. To achieve this, the bacteria contain chlorosome structures, which contain up to 250,000 chlorophyll molecules. Chlorosomes are ellipsoidal bodies, in GSB their length varies from 100 to 200 nm, width of 50-100 nm and height of 15 – 30 nm, in GNsB the chlorosomes are somewhat smaller.
Pfam PF13711: Domain of unknown function (DUF4160) (family)
The function of these proteins is not known.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF13111: pPIWI_RE module N-terminal domain (domain)
Domain observed N-terminal to the pPIWI_RE domain module. PIWI/Argonaute modules are typically N-terminally fused to the PTND1 and PTND2 domains, pPIWI_RE_X may represent an ancestral version of these domains or represent a N-terminal innovation predating the emergence of PTND1 and PTND2.
Pfam PF24336: Family of unknown function (DUF7504) (family)
This entry represents a group of uncharacterised archaeal proteins. They contain the typical P-loop motif and are probably structurally related to the P-loop NTPases.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF22268: Family of unknown function (DUF6954) (family)
This is a family of uncharacterised bacterial proteins. They are enriched in hydrophobic residues and are likely associated with the membrane.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF10095: Uncharacterized protein conserved in bacteria (DUF2333) (family)
Members of this family of hypothetical bacterial proteins have no known function.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF08040: MNLL subunit (family)
This family consists of the MNLL subunits of NADH-ubiquinone oxidoreductase complex. NADH-ubiquinone oxidoreductase is involved in the transfer of electrons from NADH to the electron transport chain. This oxidation of NADH is coupled to proton transfer across the membrane, generating a proton motive force that is utilised for the synthesis of ATP. MNLL subunit is one of the many subunits found in the complex and it contains  a mitochondrial import sequence. However, the role of MNLL subunit is unclear.
Wikipedia: Respiratory complex I, EC 7.1.1.2 is the first large protein complex of the respiratory chains of many organisms from bacteria to humans. It catalyzes the transfer of electrons from NADH to coenzyme Q10 (CoQ10) and translocates protons across the inner mitochondrial membrane in eukaryotes or the plasma membrane of bacteria.
Pfam PF07686: Immunoglobulin V-set domain (domain)
This domain is found in antibodies as well as neural protein P0 and CTL4 amongst others.
Wikipedia: V-set domains are Ig-like domains resembling the antibody variable domain. V-set domains are found in diverse protein families, including immunoglobulin light and heavy chains; in several T-cell receptors such as CD2, CD4, CD80, and CD86; in myelin membrane adhesion molecules; in junctional adhesion molecules (JAM); in tyrosine-protein kinase receptors; and in the programmed cell death protein 1 (PD1).
Pfam PF10186: Vacuolar sorting 38 and autophagy-related subunit 14 (family)
The Atg14 or Apg14 proteins are hydrophilic proteins with a predicted molecular mass of 40.5 kDa, and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole. Subcellular fractionation indicate that Apg14p and Apg6p are peripherally associated with a membrane structure(s). Apg14p was co-immunoprecipitated with Apg6p, suggesting that they form a stable protein complex. These results imply that Apg6/Vps30p has two distinct functions: in the autophagic process and in the vacuolar protein sorting pathway. Apg14p may be a component specifically required for the function of Apg6/Vps30p through the autophagic pathway. There are 17 auto-phagosomal component proteins which are categorized into six functional units, one of which is the AS-PI3K complex (Vps30/Atg6 and Atg14). The AS-PI3K complex and the Atg2-Atg18 complex are essential for nucleation, and the specific function of the AS-PI3K apparently is to produce phosphatidylinositol 3-phosphate (PtdIns(3)P) at the pre-autophagosomal structure (PAS). The localisation of this complex at the PAS is controlled by Atg14. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. This effect seems to be mediated through direct interaction of the human Atg14 with Beclin 1 in the human phosphatidylinositol 3-kinase class III complex.
Pfam PF11593: Mediator complex subunit 3 fungal (family)
Mediator is a large complex of up to 33 proteins that is conserved from plants to fungi to humans - the number and representation of individual subunits varying with species. It is arranged into four different sections, a core, a head, a tail and a kinase-activity part, and the number of subunits within each of these is what varies with species. Overall, Mediator regulates the transcriptional activity of RNA polymerase II but it would appear that each of the four different sections has a slightly different function. Mediator subunit Hrs1/Med3 is a physical target for Cyc8-Tup1, a yeast transcriptional co-repressor.
Wikipedia: Mediator is a multiprotein complex that functions as a transcriptional coactivator in all eukaryotes. It was discovered in 1990 in the lab of Roger D. Kornberg, recipient of the 2006 Nobel Prize in Chemistry. Mediator complexes interact with transcription factors and RNA polymerase II. The main function of mediator complexes is to transmit signals from the transcription factors to the polymerase.
Pfam PF19888: Family of unknown function (DUF6361) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria, archaea and eukaryotes. Proteins in this family are typically between 388 and 411 amino acids in length.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF23102: Second Zinc fingers C2H2 type, ZNF451 (domain)
This entry represents the second Zinc Finger C2H2 type found in the ZNF451 protein. E3 SUMO-protein ligase ZNF451 is a key enzyme involved in the sumoylation process, exhibiting a preference for SUMO2 and SUMO3 over SUMO1. It facilitates the UBE2I/UBC9-mediated sumoylation of target proteins, particularly in response to DNA damage and proteasome inhibitors. ZNF451 is essential for MCM4 sumoylation,  and it negatively regulates transcriptional activation mediated by the SMAD4 complex in the context of TGF-beta signaling. Additionally, it inhibits EP300-mediated acetylation of histone H3 at 'Lys-9'.
Pfam PF19611: Family of unknown function (DUF6116) (family)
This family of putative integral membrane proteins is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are approximately 70 amino acids in length.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF23319: DAAF9 CobW_C-like domain (domain)
This domain is found in the human Dynein axonemal assembly factor 9 (DAAF9) and related proteins. It shares similarity with the C-terminal domains of Shulin that binds newly synthesized outer dynein arm complexes. It also shares a significant sequence similarity with the C-terminal domain of CobW and it is predicted to adopt a similar structure consisting of a flat antiparallel beta-sheet and two alpha-helices packed on it.