SII-SWORD/CoKE huggingface dataset:
Pfam PF00055: Laminin N-terminal (Domain VI) (domain)
Laminin is a large molecular weight glycoprotein present only in basement membranes in almost every animal tissue. It is thought to mediate the attachment, migration and organisation of cells into tissues during embryonic development by interacting with other extracellular matrix components . Each laminin is a heterotrimer assembled from alpha, beta and gamma chain subunits, secreted and incorporated into cell-associated extracellular matrices .
Wikipedia: Laminins are a family of glycoproteins of the extracellular matrix of all animals. They are major constituents of the basement membrane, namely the basal lamina. Laminins are vital to biological activity, influencing cell differentiation, migration, and adhesion.
Pfam PF03317: ELF protein (family)
This is a family of hypothetical proteins from cereal crops.
Pfam PF14992: TMCO5 family (family)
The TMCO5 family includes human transmembrane and coiled-coil domain-containing proteins 5A and 5B.
Pfam PF05240: APOBEC-like C-terminal domain (domain)
This domain is found at the C-termini of the Apolipoprotein B mRNA editing enzyme.
Wikipedia: APOBEC is a family of evolutionarily conserved cytidine deaminases.
Pfam PF10136: Site-specific recombinase (family)
Members of this family are uncharacterised bacterial proteins which are thought to be putative site-specific recombinase, although there is no evidence supporting this and may be misannotated. Sequence analysis predict helical transmembrane domains and seem to be distantly related to formate/nitrate transporters, with structural similarity to aquaporins. This may suggest that, actually, they are associated with transporter activity.
Pfam PF10974: Domain of unknown function (DUF2804) (domain)
This entry represents a domain with unknown function. This domain has been described as structurally similar to Pfam: PF07143 (PDB:2ich, residues:24 to 220).
Pfam PF11153: Protein of unknown function (DUF2931) (family)
This entry represents a set of lipoproteins that contain an N-terminal lipoprotein attachment site.
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 PF17950: S-adenosylmethionine decarboxylase N -terminal (domain)
This is the N-terminal domain found in human spermine synthase (EC 2.5.1.22). The N-terminal domain, which forms the major part of the dimerization interface, shows a considerable structural similarity to the AdoMetDC-like fold (S-adenosylmethionine decarboxylase, the enzyme that forms the aminopropyl donor substrate), [pfam:PF02675] . Deletion of the N-terminal domain led to a complete loss of spermine synthase activity, suggesting that dimerization may be required for activity. The N-terminal domain (amino acids 1-117) includes seven beta-strands and two alpha-helices.
Pfam PF06767: Sif protein (family)
This family consists of several SifA and SifB and SseJ proteins which seem to be specific to the Salmonella species. SifA, SifB and SseJ have been demonstrated to localise to the Salmonella-containing vacuole (SCV) and to Salmonella-induced filaments (Sifs). Trafficking of SseJ and SifB away from the SCV requires the SPI-2 effector SifA. SseJ trafficking away from the SCV along Sifs is unnecessary for its virulence function.
Pfam PF14663: Rapamycin-insensitive companion of mTOR RasGEF_N domain (domain)
Rictor appears to serve as a scaffolding protein that is important for maintaining mTORC2 integrity. The mammalian target of rapamycin (mTOR) is a conserved Ser/Thr kinase that forms two functionally distinct complexes, mTROC1 and mTORC2, important for nutrient and growth-factor signalling. This region is the more conserved central section that may include several individual domains. Rictor can be inhibited in the short-term by rapamycin.
Pfam PF20792: VopL C-terminal dimerization domain (domain)
The VopL C-terminal dimerization domain (VCD) is found in Vibrio parahaemolyticus protein L (VopL), an actin nucleation factor that induces stress fibres when injected into eukaryotic host cells. VCD shows a mainly alpha-helical fold, forms a U-shaped dimer and interacts with the pointed end of the  actin nucleus, contributing to the nucleation activity directly.
Pfam PF15565: Immunity protein 30 (family)
A predicted immunity protein with a mostly alpha-helical fold and a conserved DxG motif. Proteins containing this domain are present in bacterial polymorphic toxin systems as an immediate gene neighbour of the toxin gene, usually containing a domain of the Tox-SHH family of HNH/Endonuclease VII fold nucleases.
Pfam PF10907: Protein of unknown function (DUF2749) (family)
This bacterial family of proteins appear to come from the Trb operon however currently no function is 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 PF16420: Ubiquitin-like modifier-activating enzyme ATG7 N-terminus (domain)
This is the N-terminal domain of Ubiquitin-like modifier-activating enzyme ATG7. In Arabidopsis this domain binds the E2 enzymes ATG10 and ATG3.
Wikipedia: Autophagy related 7 is a protein in humans encoded by ATG7 gene. Related to GSA7; APG7L; APG7-LIKE.
Pfam PF08690: GET complex subunit GET2 (family)
This family corresponds to the GET complex subunit GET2.  The GET complex is involved in the retrieval of ER resident proteins from the Golgi. It forms a complex with GET1 and constitutes the ER membrane receptor for GET3. It facilitates the release of tail- anchored (TA) proteins from GET3 and mediates the subsequent entry into the ER membrane.
Pfam PF24915: SESTD1-like, spectrin repeat (repeat)
This region of spectrin repeats is found in human SEC14 domain and spectrin repeat-containing protein 1 (SESTD1) and similar animal proteins. SESTD1 is a regulator of the transient receptor potential channels TRPC4 and TRPC5.
Pfam PF02244: Carboxypeptidase activation peptide (domain)
Carboxypeptidases are found in abundance in pancreatic secretions.  The pro-segment moiety (activation peptide) accounts for up to a  quarter of the total length of the peptidase, and is responsible  for modulation of folding and activity of the pro-enzyme.
Pfam PF18826: Bacteroidetes VLRF1 release factor (domain)
Archaeo-eukaryotic release factor domain family belonging to the VLRF1 clade observed primarily in the bacteroidetes bacterial lineage. Contains a conserved glutamine residue in the release factor catalytic loop, suggesting it functions as an active peptidyl-tRNA hydrolase at the ribosome.
Pfam PF13979: SopA-like catalytic domain (domain)
This domain is found in the E. coli Type III secretion effector proteins SopA and NleL. These proteins have been shown to act as E3 ubiquitin ligase enzymes. This domain contains the active site cysteine residue.
Pfam PF06864: Pilin accessory protein (PilO) (family)
This family consists of several enterobacterial PilO proteins. The function of PilO is unknown although it has been suggested that it is a cytoplasmic protein in the absence of other Pil proteins, but PilO protein is translocated to the outer membrane in the presence of other Pil proteins. Alternatively, PilO protein may form a complex with other Pil protein(s). PilO has been predicted to function as a component of the pilin transport apparatus and thin-pilus basal body. This family does not seem to be related to [pfam:PF04350].
Pfam PF11130: TraC protein (family)
This family of TraC proteins is conserved in Proteobacteria. TraC is a cytoplasmic, peripheral membrane protein and is one of the proteins encoded by the F transfer region of the conjugative plasmid that is required for the assembly of F pilin into the mature F pilus structure. F pili are filamentous appendages that help establish the physical contact between donor and recipient cells involved in the conjugation process.
Pfam PF19139: Family of unknown function (DUF5822) (family)
This is a family of proteins of unknown function predominantly found in Halobacteria. This family includes some members which are thought to be peptidoglycan binding 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 PF21894: Bacteriophage N4 RNA polymerase, helical domain (domain)
This is a helical domain, also known as 'Fingers subdomain', found in the bacteriophage N4 virion RNA polymerase. This domain possesses two essential functions of the RNAP: the N-terminal part plays a role in the nucleotide addition cycle, whereas the C-terminal part is involved in promoter recognition. A swing motion of the N-terminal part of the Fingers is coupled with nucleotide addition, translocation of the DNA-RNA hybrid, and downstream double-strand DNA opening.
Pfam PF13919: Asx homology domain (domain)
A conserved alpha helical domain with a characteristic LXXLL motif. The LXXLL motif is detected in diverse transcription  factors, coactivators and corepressors and is implicated in mediating interactions between them. The ASXH domain is found in animals, fungi and plants and is predicted to play a role in mediating contact between transcription factors and chromatin-associated complexes. In Drosophila Asx and Human ASXL1, the ASXH domain is predicted to mediate interactions with the Calypso and BAP1 deubiquitinases (DUBs) which further belong to the UCHL5/UCH37 clade  of DUBs.
Pfam PF19029: DUF883 C-terminal glycine zipper region (family)
This family corresponds to the C-terminal presumed transmembrane helix found in DUF883 proteins. The helix contains a glycine zipper motif suggestive of dimerisation.
Pfam PF10435: Beta-galactosidase, domain 2 (domain)
This is the second domain of the five-domain beta-galactosidase enzyme that altogether catalyses the hydrolysis of beta(1-3) and beta(1-4) galactosyl bonds in oligosaccharides as well as the inverse reaction of enzymatic condensation and trans-glycosylation. This domain is made up of 16 antiparallel beta-strands and an alpha-helix at its C terminus. The fold of this domain appears to be unique.  In addition, the last seven strands of the domain form a subdomain with an immunoglobulin-like (I-type Ig) fold in which the first strand is divided between the two beta-sheets. In penicillin spp this strand is interrupted by a 12-residue insertion which forms an additional edge-strand to the second beta-sheet of the sub-domain. The remainder of the second domain forms a series of beta-hairpins at its N terminus, four strands of which are contiguous with part of the Ig-like sub-domain, forming in total a seven-stranded antiparallel beta-sheet. This domain is associated with family Glyco_hydro_35, [pfam:PF01301], which is N-terminal to it, but itself has no metazoan members.
Pfam PF00913: Trypanosome variant surface glycoprotein (A-type) (domain)
The trypanosome parasite expresses these proteins to evade the immune response. This family includes a variety of surface proteins such as Trypanosoma brucei VSGs such as expression site associated gene (ESAG) 6 and 7.
Pfam PF16876: Lipin/Ned1/Smp2 multi-domain protein middle domain (family)
This is a middle domain of lipins. Overall the enzyme acts as a magnesium-dependent phosphatidate phosphatase enzyme that catalyses the conversion of phosphatidic acid to diacylglycerol during triglyceride, phosphatidylcholine and phosphatidylethanolamine biosynthesis.  [ec:5.2.1.8].
Pfam PF14407: Ribosomally synthesized peptide prototyped by Frankia Franean1_4349. (family)
Ribosomally synthesized peptide linked to cyclases in chloroflexi.  It may have a link to cyclic nucleotide signaling.
Pfam PF18848: Bacterial archaeo-eukaryotic release factor family 6 (family)
Bacterial family of the archaeo-eukaryotic release factor superfamily. Likely to play roles in biological conflicts or regulation under stress conditions at the ribosome.
Pfam PF02566: OsmC-like protein (family)
Osmotically inducible protein C (OsmC) ([swissprot:P23929]) is a stress -induced protein found in E. Coli. This family also contains a organic hydroperoxide detoxification protein ([swissprot:O68390]) that  has a novel pattern of oxidative stress regulation.
Pfam PF07168: Ureide permease (family)
Heterocyclic nitrogen compounds may serve as nitrogen sources or nitrogen transport compounds in plants that are not able to fix nitrogen. This family represents ureide permease, a transporter of a wide spectrum of oxo derivatives of heterocyclic nitrogen compounds, including allantoin, uric acid and xanthine; it has 10 putative transmembrane domains with a large cytosolic central domain containing a 'Walker A' motif. Ureide permease is likely to transport other purine degradation products when nitrogen sources are low.  Transport is dependent on glucose and a proton gradient.  The family is found in bacteria, plants and yeast. These transporters are constituted of two sets of 5xTMs.
Pfam PF17031: Domain of unknown function (DUF5101) (family)
This is a family of short microsporidia-specific proteins of unknown 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 PF23631: Domain of unknown function (DUF7143) (domain)
This domain is found in a group of uncharacterised fungal proteins. It is predicted to adopt a globular alpha-helical structure.
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 PF04931: DNA polymerase phi (family)
This family includes the fifth essential DNA polymerase in yeast [ec:2.7.7.7]. Pol5p is localised exclusively to the nucleolus and binds near or at the enhancer region of rRNA-encoding DNA repeating units.
Pfam PF23499: YnfU (family)
This protein family includes the putative zinc-binding protein YnfU, encoded in the Qin prophage from Escherichia coli, and similar sequences mainly from proteobacteria. YnfU is a 56- residues micropeptide encoded by a small open reading frame (smORF). Proteins 50 or fewer residues-long have been shown to regulate the functions of larger proteins in a variety of organisms. This peptide is predicted to show an alpha-beta configuration.
Pfam PF03392: Insect pheromone-binding family, A10/OS-D (family)
This entry represents the insect odorant-binding protein A10, also known as OS-D or pherokine-1, and ejaculatory bulb-specific protein 3 (PebIII), also known as pherokine-2 .
Wikipedia: In molecular biology, the insect pheromone-binding family A10/OS-D is a family of small helical proteins postulated to contribute to the specificity of the insect’s olfactory system by binding components of the natural pheromone mixtures.
Pfam PF09489: Probable cobalt transporter subunit (CbtB) (family)
This entry represents a family of proteins which have been proposed to act as cobalt transporters acting in concert with vitamin B12 biosynthesis systems. Evidence for this assignment includes 1) prediction of a single transmembrane segment and a C-terminal histidine-rich motif likely to be a metal-binding site, 2) positional gene linkage with known B12 biosynthesis genes, 3) upstream proximity of B12 transcriptional regulatory sites, 4) the absence of other known cobalt import systems and 5) the obligate co-localisation with a protein (CbtA) predicted to have five additional transmembrane segments.
Pfam PF04949: Transcriptional activator (family)
This family of proteins may act as a transcriptional activator. It plays a role in stress response in plants.
Pfam PF21461: Hyaluronate lyase, N-terminal beta-sheet domain (domain)
Hyaluronate lyase degrades hyaluronan and certain chondroitin sulfates at beta-1,4 glycosidic linkages and constitutes a virulence factor of Streptococcus agalactiae. It consists of three structural domains, an N-terminal beta-sheet domain (also referred as to beta1), a middle catalytic alpha-helical domain ([pfam:PF08124]) and a C-terminal beta-sheet domain (beta2, [pfam:PF02278]). This entry represents the N-terminal beta-sheet domain which adopts a Ig-like fold and may serve as a connection of the alpha-domain with another structural domain.
Pfam PF15664: Transmembrane protein 252 family (family)
This family of proteins is found in eukaryotes. Proteins in this family are typically between 152 and 182 amino acids in length. The function is not known.
Pfam PF13612: Transposase DDE domain (domain)
Transposase proteins are necessary for efficient DNA transposition.  This domain is a member of the DDE superfamily, which contains three carboxylate residues that are believed to be responsible for coordinating metal ions needed for catalysis. The catalytic activity of this enzyme involves DNA cleavage at a specific site followed by a strand transfer reaction.
Pfam PF21595: CCL2 lectin-like (domain)
This protein family includes CCL2 lectin from Coprinopsis cinerea and similar sequences from fungi and some bacterial species. CCL2 is a fruiting body lectin that binds to Fuc-alpha-1,3-modified core N-glycans, which are characteristic for invertebrates but absent from fungi. This protein adopts a beta-trefoil fold consisting of three beta-beta-beta-beta repeats.
Pfam PF19909: Domain of unknown function (DUF6382) (domain)
This domain of unknown function is present at the N-terminal of uncharacterised proteins predominantly found in Firmicutes, which also contain a FHA (Forkhead-associated) domain. It is approximately 160 amino acids in length and contains a conserved sequence YxI/V motif and a Proline conserved 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 PF16155: Domain of unknown function (DUF4863) (family)
This family consists of uncharacterised proteins around 150 residues in length and is mainly found in various delta- proteobacteria, but also several fungal species. Distant homology analysis suggest proteins from this family have a cupin-like fold and may be related to a group of lyases involved in the metabolism of benzoate. Few proteins from this family are annotated as p-hydroxylaminobenzoate lyases, NbaB, and this proposed function matches well their phylogenetic distribution, but there seems to be no direct experimental verification of this function, therefore at this point we call it a DUF.
Pfam PF06804: NlpB/DapX lipoprotein (family)
This family consists of a number of bacterial lipoproteins often known as NlpB or DapX. This lipoprotein is detected in outer membrane vesicles in Escherichia coli and appears to be nonessential.
Pfam PF06331: Transcription factor TFIIH complex subunit Tfb5 (family)
This family is a component of the general transcription and DNA repair factor IIH.  TFB5 has been shown to be required for efficient recruitment of TFIIH to a promoter.
Wikipedia: In molecular biology, this protein domain represents Tbf5 which stands for TTDA subunit of TFIIH basal transcription factor complex, and Rex1 a type of nucleotide excision repair (NER) proteins. Nucleotide excision repair is a major pathway for repairing UV light-induced DNA damage in most organisms. The function of this protein is to aid transcription.
Pfam PF17520: Family of unknown function (DUF5445) (family)
This is a family of unknown function found in Enterobacteriaceae.
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 PF03635: Vacuolar protein sorting-associated protein 35 (repeat)
Vacuolar protein sorting-associated protein (Vps) 35 is one of around 50 proteins involved in protein trafficking.  In particular, Vps35  assembles into a retromer complex with at least four other proteins Vps5, Vps17, Vps26 and Vps29.  Vps35 contains a central region of weaker sequence similarity, thought to indicate the presence of at least three domains.
Pfam PF14657: Arm DNA-binding domain (domain)
This family includes AP2-like domains found in a variety of phage integrase proteins.  These domains bind to Arm DNA sites.
Pfam PF05451: Phytoreovirus nonstructural protein Pns10/11 (family)
This family consists of Phytoreovirus nonstructural proteins Pns10 and Pns11. Genome segment S11 of rice gall dwarf virus (RGDV), a member of Phytoreovirus encodes a putative protein of 40 kDa that exhibits approximately 37% homology at the amino acid level to the nonstructural proteins Pns10 of rice dwarf and wound tumour viruses, which are other members of Phytoreovirus.
Pfam PF20581: Family of unknown function (DUF6785) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria and archaea. There are highly conserved sequence motifs: FSxWFF and ExxxFP. There are eleven conserved tryptophan residues, which may suggest to play an important role.
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 PF20941: Domain of unknown function (DUF6848) (domain)
This domain is found in uncharacterised protein rbstp2171 from Bacillus stearothermophilus and similar proteins found in bacteria and tailed bacteriophages.
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.