SII-SWORD/CoKE huggingface dataset:
Pfam PF00278: Pyridoxal-dependent decarboxylase, C-terminal sheet domain (domain)
These pyridoxal-dependent decarboxylases act on ornithine, lysine,  arginine and related substrates.
Wikipedia: In molecular biology, group IV pyridoxal-dependent decarboxylases are a family of enzymes comprising ornithine decarboxylase EC 4.1.1.17, lysine decarboxylase EC 4.1.1.18, arginine decarboxylase EC 4.1.1.19 and diaminopimelate decarboxylaseEC 4.1.1.20. It is also known as the Orn/Lys/Arg decarboxylase class-II family.
Pfam PF17469: Gp68-like predicted RNA polymerase component (domain)
This is family represents a protein that purifies with the non-virion RNA polymerase in group 1/PhiKZ-like phages. Structure prediction shows the protein contain a pair of beta strands and several short helical segments.
Pfam PF15242: Family of FAM53 (family)
The FAM53 protein family refers to a family of proteins, which bind to a transcriptional regulator that modulates cell proliferation. It is known to be highly important in neural tube development. It is found in eukaryotes and is typically between 303 and 413 amino acids in length.
Pfam PF05619: Borrelia burgdorferi protein of unknown function (DUF787) (family)
This family consists of several hypothetical proteins of unknown function from Borrelia burgdorferi (Lyme disease spirochete).
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 PF25056: Domain of unknown function (DUF7793) (domain)
This domain is found in uncharacterised bacterial proteins. It shares detectable similarity to SpoIIAA-like 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 PF20726: Nairovirus, structural glycoprotein Gn (domain)
This entry represents the structural glycoprotein Gn from Nairovirus including CCHFV and Dugbe virus. Gn and Gc (at the C-terminal of M segment) form spikes on the viral surface and mediate virus entry into target cells. The C-terminal cytoplasmic tail contains a pair of tightly arranged dual beta-beta-alpha zinc fingers.
Pfam PF10087: Uncharacterized protein conserved in bacteria (DUF2325) (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 PF05884: Interactor of ZYG-11 (family)
This family of proteins represents the protein product of the gene W03D8.9 which has been identified as an interactor of ZYG-11.  ZYG-11 is the substrate-recognition subunit for a CUL-2 based complex that regulates cell division and embryonic development.
Pfam PF01032: FecCD transport family (family)
This is a sub-family of bacterial binding protein-dependent transport systems family. This Pfam entry contains the inner components of this multicomponent transport system.
Pfam PF05650: Domain of unknown function (DUF802) (family)
This region is found as two or more repeats in a small number of hypothetical 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 PF02327: Bacteriochlorophyll A protein (domain)
Bacteriochlorophyll A protein is involved in the energy transfer system of green photosynthetic bacteria. The protein forms a homotrimer, with each monomer unit containing seven molecules of bacteriochlorophyll A.
Pfam PF23165: F-box only protein 41 C2H2 zinc finger (domain)
This classical C2H2 zinc finger domain is found in human F-box only protein 41 (FBXO41) and related proteins including ZN365 protein. Members of the F-box protein family, such as FBXO41, are characterized by an approximately 40-amino acid F-box motif. These proteins are substrate recognition component of the SCF complexes. They interact with SKP1 through the F box, and with ubiquitination targets through other protein interaction domains. ZN365 is involved in homologous recombination repair pathway and contributes to the genomic stability by preventing telomere dysfunction.
Pfam PF12375: Phage protein (family)
This family of proteins is found in bacteria and viruses. Proteins in this family are typically between 112 and 194 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 PF20845: Pre-mRNA cleavage complex 2 protein Pcf11, alpha-helical domain (domain)
This entry represents the alpha-helical domain found adjacent the CID domain in Pre-mRNA cleavage complex 2 protein Pcf11 from human and similar animal proteins, whose function is unknown. Pcf11 is a subunit and an essential component of CFII (the orthologue of cleavage and polyadenylation factor IA (CFIA) from yeast) which is involved in pre-mRNA 3' end processing and in transcription termination. PCF11 is thought to be one of the scaffold proteins of the processing complex. PCF11-mediated termination is essential for vertebrate development.
Pfam PF18036: Ubiquitin-like domain (domain)
This domain has a ubiquitin-like fold. It is found in a diverse range of proteins including the 25KDa U11/U12 component.
Pfam PF02012: BNR/Asp-box repeat (repeat)
Members of this family contain multiple BNR (bacterial neuraminidase repeat) repeats or Asp-boxes. The repeats are short, however the repeats are never found closer than 40 residues together suggesting that the repeat is structurally longer. These repeats are found in many glycosyl hydrolases as well as other extracellular proteins of unknown function.
Wikipedia: BNR/Asp-box repeat is a repetitive sequence of amino acids contained in some proteins. Many of these proteins contain multiple BNR repeats or Asp-boxes.
Pfam PF13803: Domain of unknown function (DUF4184) (domain)
This domain of unknown function contains several highly conserved histidines.
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 PF03760: Late embryogenesis abundant (LEA) group 1 (family)
Family members are conserved along the entire coding region, especially within the hydrophobic internal 20 amino acid motif, which may be repeated.
Pfam PF04669: PBDC1 protein (domain)
This entry includes PBDC1 protein from mammals and its homologues from fungi. The function of these proteins is not yet clear.
Pfam PF01003: Flavivirus capsid protein C (family)
Flaviviruses are small enveloped viruses with virions comprised of 3 proteins called C, M and E.  Multiple copies of the C protein  form the nucleocapsid, which contains the ssRNA molecule.
Pfam PF24458: Domain of unknown function (DUF7573) (domain)
This entry represents a small family of uncharacterised proteins found mainly in Halobacteria. They contain two pairs of conserved cysteines that are likely involved in metal coordination.
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 PF00343: Carbohydrate phosphorylase (family)
The members of this family catalyse the formation of  glucose 1-phosphate from one of the following polyglucoses;   glycogen, starch, glucan or maltodextrin.
Pfam PF16570: Gram-positive pilin backbone subunit 3, Cna-B-like domain (domain)
GramPos_pilinD3 is one of the major backbone units of Gram-positive pili, such as those from S.pneumoniae.  There are three major pilin subunits that form the polymeric backbone of the pilin from S.  pneumoniae, constructed of three transthyretin-like, CnaB, domains along with a crucial N-terminal domain, D1. The three Cna-B like domains are stabilised by internal Lys-Asn isopeptdie bonds, Gram-positive pili are formed from a single chain of covalently linked subunit proteins (pilins), usually comprising an adhesin at the distal tip, a major pilin that forms the polymer shaft and a minor pilin that mediates cell wall anchoring at the base.
Pfam PF05748: Rubella membrane glycoprotein E1 (family)
Rubella virus (RV), the sole member of the genus Rubivirus within the family Togaviridae, is a small enveloped, positive strand RNA virus.  The nucleocapsid consists of 40S genomic RNA and a single species of capsid protein which is enveloped within a host-derived lipid bilayer containing two viral glycoproteins, E1 (58 kDa) and E2 (42-46 kDa).  In virus infected cells, RV matures by budding either at the plasma membrane, or at the internal membranes depending on the cell type and enters adjacent uninfected cells by a membrane fusion process in the endosome, directed by E1-E2 heterodimers. The heterodimer formation is crucial for E1 transport out of the endoplasmic reticulum to the Golgi and plasma membrane. In RV E1, a cysteine at position 82 is crucial for the E1-E2 heterodimer formation and cell surface expression of the two proteins. The E1 has been shown to be a type 1 membrane protein, rich in cysteine residues with extensive intramolecular disulfide bonds.
Pfam PF05321: Haemolysin expression modulating protein (family)
This family consists of haemolysin expression modulating protein (HHA) homologues. YmoA and Hha are highly similar bacterial proteins  downregulating gene expression in Yersinia enterocolitica and Escherichia  coli, respectively.
Wikipedia: In molecular biology, the haemolysin expression modulating protein family is a family of proteins. This family consists of haemolysin expression modulating protein (Hha) from Escherichia coli and its enterobacterial homologues, such as YmoA from Yersinia enterocolitica, and RmoA encoded on the R100 plasmid. These proteins act as modulators of bacterial gene expression. Members of this family act in conjunction with members of the H-NS family, participating in the thermoregulation of different virulence factors and in plasmid transfer. Hha, along with the chromatin-associated protein H-NS, is involved in the regulation of expression of the toxin alpha-haemolysin in response to osmolarity and temperature. YmoA modulates the expression of various virulence factors, such as Yop proteins and YadA adhesin, in response to temperature. RmoA is a plasmid R100 modulator involved in plasmid transfer. The HHA family of proteins display striking similarity to the oligomerisation domain of the H-NS proteins.
Pfam PF07149: Pes-10 (family)
This family consists of several Caenorhabditis elegans pes-10 and related proteins. Members of this family are typically around 400 residues in length. The function of this family is unknown.
Pfam PF12915: Protein of unknown function (DUF3833) (domain)
This is a family of uncharacterised proteins 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 PF20673: Spumavirus Gag polyprotein, C-terminal (domain)
This entry corresponds to the C-terminal region of Gag polyprotein from Spumaviruses, which contains a chromatin binding sequence (CBS) and GR boxes.
Pfam PF17817: PDZ domain (domain)
This entry corresponds to PDZ domains found in neurabin and spinophilin proteins. The PDZ domain in spinophilin mediates its interaction with protein phosphatase PP1.
Pfam PF14440: Xanthomonas XOO_2897-like deaminase (family)
A member of the nucleic acid/nucleotide deaminase superfamily prototyped by Xanthomonas XOO_2897. Members of this family are present in a wide phyletic range of bacteria and are predicted to function as toxins in bacterial polymorphic toxin systems. The Xanthomonas XOO_2897 lack an immunity protein and is predicted  to be deployed against its eukaryotic host.
Pfam PF16797: Fungal kinase associated-1 domain (domain)
This domain is found at the C-terminus of several fungal kinases.
Pfam PF13735: tRNA nucleotidyltransferase domain 2 putative (domain)
This entry represents the C-terminal domain of the CCA-adding enzymes. It is a putative tRNA nucleotidyltransferase domain. CCA-adding enzymes are responsible for the synthesis and repair of the 3' terminal CCA sequence of tRNA molecules. They are encoded by essential genes in almost all organisms and add the three ribonucleotides C, C, and A to the 3' end of tRNAs in sequential order .
Pfam PF22100: VtrA C-terminal periplasmic domain (domain)
VtrA forms a complex with VtrC on the surface of the membrane that surrounds the bacterial cell. These two proteins create a platform that can bind to bile salts and trigger the release of bacterial toxins. This entry represents the C-terminal periplasmic domain of VtrA that interacts with the VtrC periplasmic domain. The VtrA periplasmic domain adopts an alpha/beta structure consisting of a five-stranded antiparallel beta-sheet and two helices packed on one side of it.
Pfam PF23155: Domain of unknown function (DUF7053) (domain)
This domain is found in a group of uncharacterised proteins mainly from Fungi. It shares significant sequence similarity with domains members of the Bet v1-like superfamily and it is predicted to adopt similar 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 PF10551: MULE transposase domain (domain)
This domain was identified by Babu and colleagues.
Pfam PF22905: Hydrolase N-terminal helical domain (domain)
This entry represents a N-terminal domain found in a family of alpha/beta hydrolases ([pfam:PF06259]).
Pfam PF19488: Family of unknown function (DUF6024) (family)
This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0001992) is described by MIBiG as an example of the following biosynthetic class, other (unspecified). This family  includes a protein from the thioguanine biosynthetic gene cluster from Erwinia amylovora CFBP1430.
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 PF03454: MoeA C-terminal region (domain IV) (domain)
This domain is found in  proteins involved in biosynthesis of molybdopterin cofactor however the exact molecular function of this domain is uncertain. The structure of this domain is known and forms an incomplete beta barrel.
Pfam PF09350: DnaJ homologue, subfamily C, member 28, conserved domain (domain)
This domain is found in proteins that may have a role in protein folding or as a chaperone, including DnaJ homolog subfamily C member 28. DnaJ is a member of the J-protein family (also known as HSP40), which are defined by the presence of a J domain that regulate the activity of 70kDa heat-shock proteins. The function of this domain is not yet known.
Pfam PF21761: NADPH-dependent reductive aminase-like, C-terminal domain (domain)
This domain is found at the C-terminal end of NADPH-dependent reductive aminase from Aspergillus oryzae (RedAm) and similar proteins predominantly found in fungi and bacteria. RedAm catalyses the reductive coupling of a broad set of carbonyl compounds with a variety of primary and secondary amines. This protein folds into  an N-terminal Rossman domain ([pfam:PF03446]) and a C-terminal helical bundle (this entry) connected by a long inter-domain alpha-helix.
Pfam PF17264: Family of unknown function (DUF5330) (family)
This is a family of unknown function which is mostly 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 PF24314: Domain of unknown function (DUF7488) (domain)
This entry represents a domain from uncharacterised proteins found mainly in Campylobacterota. Members of this entry contain two highly conserved cysteine residues.
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 PF09567: MamI restriction endonuclease (family)
This family includes the MamI (recognises and cleaves GATNN^NNATC) restriction endonuclease.
Pfam PF16061: Domain of unknown function (DUF4803) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in eukaryotes. Proteins in this family are typically between 351 and 686 amino acids in length. There is a conserved RRY sequence motif.
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 PF07596: Protein of unknown function (DUF1559) (family)
A large family of paralogous proteins apparently unique to planctomycetes.
Pfam PF09636: XkdW protein (domain)
This protein of approx. 100 residues contains two alpha helices and two beta strands and is probably monomeric. It is expressed in bacteria but is probably viral in origin. Its function is unknown.
Pfam PF01478: Type IV leader peptidase family (family)
Peptidase A24, or the prepilin peptidase as it is also known, processes the N-terminus of the prepilins. The processing is essential for the correct formation of the pseudopili of type IV bacterial protein secretion. The enzyme is found across eubacteria and archaea.
Wikipedia: In molecular biology, the Signal Peptide Peptidase (SPP) is a type of protein that specifically cleaves parts of other proteins. It is an intramembrane aspartyl protease with the conserved active site motifs 'YD' and 'GxGD' in adjacent transmembrane domains (TMDs). Its sequences is highly conserved in different vertebrate species. SPP cleaves remnant signal peptides left behind in membrane by the action of signal peptidase and also plays key roles in immune surveillance and the maturation of certain viral proteins.
Pfam PF15051: FAM198 protein (family)
This family of proteins is found in eukaryotes. The function of this family is unknown. Murine FAM198B is downregulated by FGFR signalling.
Pfam PF19845: Family of unknown function (DUF6320) (family)
This family of proteins is functionally uncharacterised. This family of proteins is mainly found in Firmicute bacteria. Proteins in this family are typically between 220 and 604 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 PF03246: Pneumovirus nucleocapsid protein (family)
This family is the Pneumovirus nucleocapsid protein. It is the most abundant protein in the virion and an important element in conferring helical symmetry on the nucleoprotein core as well as interacting with the M protein during virion formation.
Pfam PF24268: T2SS substrate NttC (domain)
This entry represents the T2SS protein NttC from Legionella pneumophila and related proteins found mainly in other Legionella species. NttC has a key role during L. pneumophila infection of V. vermiformis and W. magna amoeba. It folds into an Ig-like beta-sandwich containing ten beta-strands and an alpha-helix which provides one of the pair cysteines involved in the disulfide bond formation. NttC is unusual in that it lacks a compact core and instead contains a buried internal cavity. This cavity was proposed to bind a variety of organic molecules.
Pfam PF13167: GTP-binding GTPase N-terminal (family)
This is the N-terminal region of GTP-binding HflX-like proteins. The full-length members bind and interact with the 50S ribosome and are GTPases, hydrolysing GTP/GDP/ATP/ADP. This N-terminal region is necessary for stability of the whole protein.