SII-SWORD/CoKE huggingface dataset:
Pfam PF12163: DNA replication regulator (domain)
This family of proteins is found exclusively in epsilon-proteobacteria. Proteins in this family are approximately 180 amino acids in length. The structure of HobA is a modified Rossmann fold consisting of a five-stranded parallel beta-sheet (beta1-5) flanked on one side by alpha-2, alpha-3 and alpha-6 helices and alpha-4 and alpha-5 on the other. The alpha-1 helix is extended away from and has minimal interaction with the globular part of the protein. Four monomers interact to form a tetrameric molecule. Four calcium atoms bind to the tetramer and these binding sites may have functional relevance. The function of HobA is to regulate DNA replication and its does this by binding to DNA-A, but the exact mechanism of how this regulation occurs is purely speculative
Pfam PF20554: Domain of unknown function (DUF6766) (domain)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria and archaea. Proteins in this family are typically between 215 and 226 amino acids in length. Structure prediction shows this family contains 4 alpha helices.
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 PF04766: Nucleopolyhedrovirus p26 protein (family)
Family of Baculovirus p26 proteins.
Pfam PF08775: ParB family (domain)
ParB is a component of the par system which mediates accurate DNA partition during cell division.  It recognises A-box and B-box DNA motifs.  ParB forms an asymmetric dimer with 2 extended helix-turn-helix (HTH) motifs that bind to A-boxes. The HTH motifs emanate from a beta sheet coiled coil DNA binding module. Both DNA binding elements are free to rotate around a flexible linker, this enables them to bind to complex arrays of A- and B-box elements on adjacent DNA arms of the looped partition site.
Pfam PF16084: LydA-holin antagonist (family)
LydB is a family of proteins that are antagonistic to the lysing action of holin LydA.
Pfam PF03207: Borrelia outer surface protein D (OspD) (family)
This is a family of outer surface proteins from Borrelia. The function of these proteins is unknown.
Pfam PF03528: Rabaptin (coiled_coil)
Regeneration of injured axons at neuromuscular junctions has been assumed to be regulated by extra-cellular factors that promote neurite outgrowth. A novel neurite outgrowth factor from chick denervated skeletal muscle has been cloned and characterised. The protein, termed neurocrescin (rabaptin), has been shown to be secreted in an activity-dependent fashion .

Rabaptin is a 100kDa coiled-coil protein that interacts with the GTP form of the small GTPase Rab5, a potent regulator of endocytic transport . It is mainly cytosolic, but a fraction co-localises with Rab5 to early endosomes. Rab5 recruits rabaptin-5 to purified early endosomes in a GTP-dependent manner, demonstrating functional similarities with other members of the Ras superfamily. Immunodepletion of rabaptin-5 from cytosol strongly inhibits Rab5-dependent early endosome fusion. Thus, rabaptin-5 is a Rab effector required for membrane docking and fusion.
Wikipedia: Rabaptin is a key protein involved in regeneration of injured axons.
Pfam PF05017: TMP repeat (repeat)
This short repeat consists of the motif WXXh where X can be any residue and h is a hydrophobic residue. The repeat is name TMP after its occurrence in the  tape measure protein (TMP). Tape measure protein is a component of phage tail and probably forms a beta-helix. Truncated forms of TMP lead to shortened tail fibres. This repeat is also found in non-phage proteins where it may play a structural role.
Pfam PF23995: Domain of unknown function (DUF7313) (domain)
This domain is found in uncharacterised archaeal proteins. It is predicted to fold into a four-helical bundle and it is 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 PF09243: Mitochondrial small ribosomal subunit Rsm22 (family)
Rsm22 has been identified as a mitochondrial small ribosomal subunit and is a methyltransferase.  In Schizosaccharomyces pombe, Rsm22 is tandemly fused to Cox11 (a factor required for copper insertion into cytochrome oxidase) and the two proteins are proteolytically cleaved after import into the mitochondria.
Pfam PF10170: Cysteine-rich domain (domain)
This is the N-terminal approximately 100 amino acids of a family of proteins found from nematodes to humans. It contains between six and eight highly conserved cysteine residues and a characteristic DPF sequence motif. One member is putatively named as receptor for egg jelly protein but this could not confirmed.
Pfam PF07664: Ferrous iron transport protein B C terminus (family)
Escherichia coli has an iron(II) transport system (feo) which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this transport system. FeoB is a large 700-800 amino acid integral membrane protein. The N-terminus has been previously erroneously described as being ATP-binding. Recent work shows that it is similar to eukaryotic G-proteins and that it is a GTPase.
Pfam PF25130: Domain of unknown function (DUF7820) (domain)
This domain is found in uncharacterised proteins from fungi. It contains three pairs of conserved cysteine residues that are predicted to form disulfide bonds. It also contains a long region that is predicted to be disordered.
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 PF04881: Adenovirus GP19K (family)
This 19 kDa glycoprotein binds the major histocompatibility (MHC) class I antigens in the endoplasmic reticulum (ER).  The ER retention signal at the C-terminus of GP19K causes retention of the complex in the ER, preventing lysis of the cell by cytotoxic T lymphocytes.
Pfam PF10290: Cell wall protein YJL171C/Tos1, N-terminal (domain)
This domain is found in the N-terminal region of cell wall proteins, including Tos1 and YJL171C from budding yeasts. The function of this glycine-rich region is unknown.
Pfam PF13960: Domain of unknown function (DUF4218) (domain)
This presumed domain is functionally uncharacterised.
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 PF08597: Translation initiation factor eIF3 subunit (family)
This is a family of proteins which are subunits of the eukaryotic translation initiation factor 3 (eIF3).  In yeast it is called Hcr1.  The Saccharomyces cerevisiae protein [swissprot:Q05775] has been shown to be required for processing of 20S pre-rRNA and binds to 18S rRNA and eIF3 subunits Rpg1p and Prt1p.
Pfam PF08787: Alginate lyase (domain)
Alginate lyases are enzymes that degrade the linear polysaccharide alignate.              They cleave the glycosidic linkage of alignate through a beta-elimination reaction.  This family forms an all beta fold and is different to all alpha fold of [pfam:PF05426].
Wikipedia: The enzyme mannuronate-specific alginate lyase catalyzes the degradation of alginate into various monosaccharide and polysaccharide products:Eliminative cleavage of alginate to give oligosaccharides with 4-deoxy-α-L-erythro-hex-4-enuronosyl groups at their non-reducing ends and β-D-mannuronate at their reducing end.
Pfam PF23171: Hypoxia-inducible factor 1-alpha bHLH domain (domain)
The founding member of this family is the bHLH domain of Hypoxia-inducible factor 1-alpha that functions as a master transcriptional regulator of the adaptive response to hypoxia. This domain also found in other transcription factors such as Single-minded homolog 1 (SIM1), Neuronal PAS domain-containing protein 3 (NPAS3), Endothelial PAS domain-containing protein 1 (EPAS1) etc.
Pfam PF17387: Glycosyl hydrolase family 59 central domain (domain)
This entry represents the central domain of the glycosyl hydrolase family 59 members.
Glycoside hydrolase family 59 GH59 comprises enzymes with only one known activity; galactocerebrosidase (3.2.1.46).

Globoid cell leukodystrophy (Krabbe disease) is a severe, autosomal recessive disorder that results from deficiency of galactocerebrosidase (GALC) activity . GALC is responsible for the lysosomal catabolism of certain galactolipids, including galactosylceramide and psychosine .
Wikipedia: In molecular biology, glycoside hydrolase family 59 is a family of glycoside hydrolases.
Pfam PF16074: Type IV Pilus-assembly protein W (family)
PilW is a family of putative type IV pilus-assembly proteins. PilW is one of the component proteins of the pilus biogenesis process whereby pilus fibres are assembled in the periplasm, emerge onto the cell surface and are there stabilised, to allow bacterial attachment to host cells. PilW is an outer-membrane protein necessary for both the functionality of fibres and their stabilisation.
Pfam PF14471: Domain of unknown function (DUF4428) (domain)
This putative zinc finger domain is found in uncharacterised bacterial proteins.
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 PF16358: RcsF lipoprotein (family)
The RcsF lipoprotein is a component of the Rcs signaling system. It activates the Rcs system by transmitting signals from the cell suface to the histidine kinase RcsC.
Pfam PF23681: ATP-dependent rRNA helicase SPB4-like, C-terminal tail (domain)
This domain is found at the C-terminal end of ATP-dependent rRNA helicase SPB4 from Saccharomyces cerevisiae and similar sequences mainly from fungi and some animal species. SPB4 is involved in the biogenesis of 60S ribosomal subunits. It is is organised into four domains: dual RecA domains ([pfam:PF00270] and [pfam:PF00271]), a C-terminal extension ([pfam:PF13959]) and a C-terminal tail (CTT, this entry). This domain forms a V-shaped alpha-helical structure.
Pfam PF22320: Zonadhesin, first cohesin-like domain (domain)
This entry represents the first cohesin-like domain present in zonadhesin protein from Pichia pastoris.
Pfam PF12585: Protein of unknown function (DUF3759) (family)
This family of proteins is found in eukaryotes. Proteins in this family are typically between 107 and 132 amino acids in length. There is a single completely conserved residue H 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 PF06031: SERTA motif (conserved_site)
This family consists of a novel motif designated as SERTA (for SEI-1, RBT1, and TARA), corresponding to the largest conserved region among TRIP-Br proteins. The function of this motif is uncertain, but the CDK4-interacting segment of p34SEI-1 (amino acid residues 44-161) includes most of the SERTA motif.
Pfam PF11221: Subunit 21 of Mediator complex (family)
Med21 has been known as Srb7 in yeasts, hSrb7 in humans and Trap 19 in Drosophila. The heterodimer of the two subunits Med7 and Med21 appears to act as a hinge between the middle and the tail regions of Mediator.
Wikipedia: Mediator of RNA polymerase II transcription subunit 21 is an enzyme that in humans is encoded by the MED21 gene.
Pfam PF02030: Hypothetical lipoprotein (MG045 family) (family)
This family includes hypothetical lipoproteins, the amino terminal part of this protein is related to [pfam:PF01547], a family of solute binding proteins. This suggests this family also has a solute binding function.
Pfam PF08124: Polysaccharide lyase family 8, N terminal alpha-helical domain (repeat)
This family consists of a group of secreted bacterial lyase enzymes [ec:4.2.2.1] capable of acting on hyaluronan and chondroitin in the extracellular matrix of host tissues, contributing to the invasive capacity of the pathogen.
Pfam PF01960: ArgJ family (family)
Members of the ArgJ family catalyse the first [ec:2.3.1.1] and fifth steps [ec:2.3.1.35] in arginine biosynthesis.
Wikipedia: In molecular biology, members of the ArgJ protein family are bifunctional protein that catalyses the first and fifth steps in arginine biosynthesis. The structure has been determined for glutamate N-acetyltransferase 2, an ArgJ-like protein from Streptomyces clavuligerus.
Pfam PF17067: Ribosomal protein S31e (family)
RPS31, Ubi3 precursor, which is part of mature 60S and 40S ribosomal subunits. It seems that linear ubiquitin fusion to Rps31 and its subsequent cleavage are required for the efficient production and functional integrity of 40S ribosomal subunits.
Pfam PF11324: Protein of unknown function (DUF3126) (family)
This family of proteins with unknown function appear to be restricted to Alphaproteobacteria.
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 PF18536: Domain of unknown function (DUF5623) (domain)
This is a domain of unknown function found in proteobacteria.
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 PF15553: Testis-expressed protein 19 (family)
This family of proteins is expressed in testis.
Pfam PF16068: Domain of unknown function (DUF4810) (family)
This family of proteins is found in bacteria. Proteins in this family are typically between 117 and 134 amino acids in length. There is a conserved PES sequence motif. It is a putative lipoprotein.
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 PF24749: Domain of unknown function (DUF7695) (domain)
This domain is found in uncharacterised bacterial proteins. It contains a pair of conserved cysteines and it is predicted to adopt a fold which is typical for zinc-ribbon domains.
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 PF19638: Family of unknown function (DUF6141) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria and archaea. Proteins in this family are typically between 159 and 175 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 PF12023: Domain of unknown function (DUF3511) (family)
This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is about 50 amino acids in length. This domain has two completely conserved residues (Y and K) 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 PF17373: Family of unknown function (DUF5395) (family)
This is a family of unknown function found in Archaea and 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 PF01870: Archaeal holliday junction resolvase (hjc) (family)
This family of archaebacterial proteins are holliday junction resolvases (hjc gene). The Holliday junction is an essential intermediate of homologous recombination. This protein is the archaeal equivalent of RuvC but is not sequence similar.
Pfam PF22918: PTEN2, C2 domain (domain)
This entry represents a C2 domain found in PTEN2A (Phosphatidylinositol 3,4,5-trisphosphate 3-phosphatase and protein-tyrosine-phosphatase) family and related proteins.
Pfam PF03096: Ndr family (domain)
This family consists of proteins from different gene families: Ndr1/RTP/Drg1, Ndr2, and Ndr3. Their similarity was previously noted. The precise molecular and cellular function of members of this family is still unknown. Yet, they are known to be involved in cellular  differentiation events. The Ndr1 group was the first to be discovered. Their expression is repressed by the proto-oncogenes N-myc and c-myc, and in line with this observation, Ndr1 protein expression is down-regulated in neoplastic cells, and is reactivated when differentiation is induced by chemicals such as retinoic acid. Ndr2 and Ndr3 expression is not under the control of N-myc or c-myc. Ndr1 expression is also activated by several chemicals: tunicamycin and homocysteine induce Ndr1 in human umbilical endothelial cells; nickel induces Ndr1 in several cell types. Members of this family are found in wide variety of multicellular eukaryotes, including an Ndr1 type protein in Helianthus annuus (sunflower), known as Sf21 [swissprot:O23969]. Interestingly, the highest scoring matches in the noise are all alpha/beta hydrolases [pfam:PF00561], suggesting that this family may have an enzymatic function (Bateman A pers. obs.).
Pfam PF14078: Domain of unknown function (DUF4259) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria and eukaryotes. Proteins in this family are typically between 118 and 145 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 PF10511: Trappin protein transglutaminase binding domain (family)
Trappin-2, itself a protease inhibitor, has this unique N-terminal domain that enables it to become cross-linked to extracellular matrix proteins by transglutaminase. This domain contains several repeated motifs with the the consensus sequence Gly-Gln-Asp-Pro-Val-Lys, and these together can anchor the whole molecule to extracellular matrix proteins, such as laminin, fibronectin, beta-crystallin, collagen IV, fibrinogen, and elastin, by transglutaminase-catalysed cross-links. The whole domain is rich in glutamine and lysine, thus allowing and transglutaminase(s) to catalyse the formation of an intermolecular epsilon-(gamma-glutamyl)lysine isopeptide bond. Cementoin is associated with the WAP family, [pfam:PF00095], at the C-terminus.
Wikipedia: In molecular biology, the trappin protein transglutaminase binding domain or cementoin is a protein domain found at the N-terminus of Whey Acidic Protein (WAP) domain-containing protease inhibitors such as trappin-2. This N-terminal domain enables it to become cross-linked to extracellular matrix proteins by transglutaminase. This domain contains several repeated motifs with the consensus sequence Gly-Gln-Asp-Pro-Val-Lys, and these together can anchor the whole molecule to extracellular matrix proteins, such as laminin, fibronectin, beta-crystallin, collagen IV, fibrinogen, and elastin, by transglutaminase-catalysed cross-links. The whole domain is rich in glutamine and lysine, thus allowing transglutaminase(s) to catalyse the formation of an intermolecular epsilon-(gamma-glutamyl)lysine isopeptide bond.
Pfam PF22572: GPR158/179 extracellular domain (domain)
This entry represents the extracellular domain of GPR158 (also known as metabotropic glycine receptor, mGlyR) and GRP179. This domain has a Cache-like fold which participates in ligand recognition and also mediates dimerization and stability of the dimer. GPR158 functions in cognition, stress-induced mood control, and synaptic development.
Pfam PF20306: Small protein found in certain Dnd DNA modification systems (family)
Analogous to an antitoxin, this small protein potentially acts as a negative regulatory component that might sense the presence of invaders by acting as a binding factor or substrate for invader-encoded enzymes like viral peptidases in certain Dnd systems.