SII-SWORD/CoKE huggingface dataset:
Pfam PF02593: Domain of unknown function (family)
This family catalyses the synthesis of thymidine monophosphate (dTMP) from deoxyuridine monophosphate (dUMP). The physiological co-substrate has not yet been identified.  Previous designation of this famliy as being thymidylate synthase from one paper, [cite:PUB00075419], has been shown to be erroneous. The proteins are 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 PF00509: Haemagglutinin (family)
Haemagglutinin from influenza virus causes membrane fusion of the viral membrane with the host membrane. Fusion occurs after the host cell internalises the virus by endocytosis.  The drop of pH causes release of a hydrophobic fusion peptide and a large conformational change leading to membrane fusion.
Wikipedia: Influenza hemagglutinin (HA) or haemagglutinin[p] is a homotrimeric glycoprotein found on the surface of influenza viruses and is integral to its infectivity.
Pfam PF01551: Peptidase family M23 (domain)
Members of this family are zinc metallopeptidases with a range of specificities. The peptidase family M23 is included in this family, these are Gly-Gly endopeptidases. Peptidase family M23 are also endopeptidases. This family also includes some bacterial lipoproteins such as [swissprot:P33648] for which no proteolytic activity has been demonstrated. This family also includes leukocyte cell-derived chemotaxin 2 (LECT2) proteins. LECT2 is a liver-specific protein which is thought to be linked to hepatocyte growth although the exact function of this protein is unknown.
Pfam PF17458: Family of unknown function (DUF5421) (family)
This is a domain of unknown function found in Chlamydia.
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 PF17994: Galactofuranosyltransferase 2 N-terminal (domain)
This is the N-terminal beta-barrel domain found in the polymerizing galactofuranosyltransferase GlfT2 (Rv3808c). This enzyme synthesizes the bulk of the galactan portion of the mycolyl-arabinogalactan complex, which is the largest component of the mycobacterial cell wall such as in Mycobacterium tuberculosis. The N-terminal domain contains two short helices preceding a 10-stranded beta-sandwich with jelly roll topology.
Pfam PF22191: IBR domain (domain)
This entry represents an IBR domain, related to [pfam:PF01485].
Pfam PF02541: Ppx/GppA phosphatase family (family)
This family consists of the N-terminal region of exopolyphosphatase (Ppx) [ec:3.6.1.11] and guanosine pentaphosphate phospho-hydrolase (GppA) [ec:3.6.1.40].
Pfam PF20260: RNA methyltransferase PUA domain (domain)
RNA methyltransferases modify nucleotides during ribosomal RNA maturation in a site-specific manner.  The Escherichia coli member is specific for U1498 methylation.
Pfam PF00011: Hsp20/alpha crystallin family (domain)
Not only do small heat-shock-proteins occur in eukaryotes and prokaryotes but they have also now been shown to occur in cyanobacterial phages as well as their bacterial hosts.
Wikipedia: The heat shock protein Hsp20 family, also known as small heat shock proteins (sHSPs), is a family of heat shock proteins.
Pfam PF19862: Family of unknown function (DUF6336) (family)
This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0001593) is described by MIBiG as an example of the following biosynthetic class, NRP (non-ribosomal peptide), in  particular the ficellomycin biosynthetic gene cluster from  Streptomyces ficellus.
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 PF23225: Zinc finger protein 462, seventh C2H2 zinc finger (domain)
This domain is found in the human Zinc finger protein 462 and related proteins. This protein is involved in transcription by regulating chromatin structure and organisation. ZNF462 is a multidomain protein that contains a number of classical C2H2 zinc fingers. This entry represents one of them.
Pfam PF09608: Putative transmembrane protein (Alph_Pro_TM) (family)
This family consists of predicted transmembrane proteins of about 270 amino acids. Members are found, so far, only among the Alphaproteobacteria and only once in each genome.
Pfam PF13097: CENP-A nucleosome associated complex (NAC) subunit (family)
CENP-U is one of the components that assembles onto the CENP-A-nucleosome associated complex (NAC). The centromere, which is the basic element of chromosome inheritance, is epigenetically determined in mammals. CENP-A, the centromere-specific histone H3 variant, assembles an array of nucleosomes and it is this that seems to be the prime candidate for specifying centromere identity. CENP-A nucleosomes directly recruit a proximal CENP-A nucleosome associated complex (NAC) comprised of CENP-M, CENP-N and CENP-T, CENP-U(50), CENP-C and CENP-H. Assembly of the CENP-A NAC at centromeres is dependent on CENP-M, CENP-N and CENP-T. Additionally, there are seven other subunits which make up the CENP-A-nucleosome distal (CAD) centromere, CENP-K, CENP-L, CENP-O, CENP-P, CENP-Q, CENP-R and CENP-S, also assembling on the CENP-A NAC. FTA4 is the equivalent component of the fission yeast Sim4 complex.
Pfam PF10659: Trypanosome variant surface glycoprotein C-terminal domain (domain)
The trypanosome parasite expresses these proteins to evade the immune response.
Pfam PF20156: Flagellin glycosyltransferase Maf helical bundle domain (domain)
This entry represents the Flagellin glycosyltransferase Maf helical bundle domain.
Pfam PF17245: Cell division control protein 24, OB domain 2 (domain)
This family contains OB-fold domains that bind to nucleic acids. The family includes a domain found in Cell division control protein 24 (Cdc24). Cdc24 plays an essential role in the progression of normal DNA replication and is required to maintain genomic integrity. Cdc24 has been reported to interact with replication factor C (RFC) as well as proliferating cell nuclear antigen (PCNA), and has been suggested to act as a target for the regulation of damage repair DNA synthesis.
Pfam PF17571: Family of unknown function (DUF5477) (family)
This is a family of unknown function found in Podoviridae.
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 PF23073: Domain of unknown function (DUF7045) (domain)
This domain is found in a group of uncharacterised metazoan proteins. It is predicted to adopt a globular structure with lipocalin fold. It also contains several highly conserved cysteine residues that are likely involved in the formation of intra-domain disulfide bridges.
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 PF24221: Nematode fibronectin type-III domain (domain)
This entry represents a fibronectin type-III domain found primarily in nematode proteins. The proteins contain several conserved cysteine residues that may either form disulphide bridges or possibly a zinc binding site. Many members of this family also contain a predicted transmembrane region following the FN3 domains, suggesting they may be membrane-anchored proteins.
Pfam PF24619: SibA-like, immunoglobulin-like domain (domain)
This immunoglobulin-like domain (Ig-like) is found in Integrin beta-like protein A from Dictyostelium discoideum (SibA) and similar sequences mainly found in lower eukaryotes. SibA is involved in cellular adhesion to substrate or phagocytic particles
Pfam PF16031: TonB polyproline region (disordered)
TonB from Escherichia coli and its homologues are critical for the uptake of siderophores through the outer membrane of Gram-negative bacteria using chemiosmotic energy. The proline-rich segment of TonB exists in a PPII-like conformation. The result implies that the proline-rich segment of TonB possesses a length of more than 15 nm, sufficient to span the periplasm of Gram-negative bacteria.
Pfam PF04578: Protein of unknown function, DUF594 (family)
This is a family of uncharacterised 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 PF20247: Domain of unknown function (DUF6602) (domain)
This entry represents a bacterial domain of unknown function. This domain is sometimes associated with a [pfam:PF14464] domain. This could suggest this domain has a role in a bacterial cognate of a Ubiquitin-like pathway.
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 PF17250: NADH-ubiquinone oxidoreductase 11 kDa subunit (family)
Complex I of the respiratory chain is a proton-pumping, NADH ubiquinone oxidoreductase that oxidises NADH in the electron transport pathway. Plants contain the series of 14 highly conserved complex I subunits found in other eukaryotic and related prokaryotic enzymes.
Pfam PF19981: Family of unknown function (DUF6417) (family)
This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0000087) is described by MIBiG as an example of the following biosynthetic class, polyketide, in particular the lasalocid biosynthetic gene cluster from Streptomyces lasaliensis. This family appears to be predominantly found in  Actinobacteria.
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 PF20034: Peptidase S80 family (family)
This family represents the protease responsible for the proteolysis of head proteins, a critical step in the morphogenesis of many tailed phages, Cleavage facilitates the conversion of the prohead to the mature capsid. All these cleavages are carried out by action at consensus S/A/G-X-E recognition sequences at 39 cleavage sites. Evidence of multiple processing sites in nine phiKZ proteins appears to represent a built-in mechanism by which the phage ensures that the majority of the propeptide regions are removed, and emphasizes the essential nature of processing in phiKZ-head morphogenesis. The family is classified by MEROPS as a serine peptidase.
Pfam PF09522: R.Pab1 restriction endonuclease (domain)
This family includes R.Pab1 from Pyrococcus abyssi. R.Pab1 is homodimeric and has a curved anti-parallel Î²-sheet, which forms a three dimensional shape resembling a 'half pipe' that is responsible for double-strand DNA-binding .
Pfam PF11207: Protein of unknown function (DUF2989) (family)
Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed.
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 PF22912: Zinc finger domain of DNA polymerase-epsilon (domain)
This zinc finger domain is found in the epsilon subunit of DNA polymerase.
Pfam PF01238: Phosphomannose isomerase type I C-terminal (domain)
This is the C-terminal domain of Phosphomannose isomerase type I enzymes (EC 5.3.1.8), which contains antiparallel beta-strands in an extended jelly roll topology with short loops connecting the strands.
Pfam PF01068: ATP dependent DNA ligase domain (domain)
This domain belongs to a more diverse superfamily, including [pfam:PF01331] and [pfam:PF01653].
Pfam PF19566: Sorting nexin 8/Mvp1 BAR domain (domain)
This is the BAR (Bin/amphiphysin/Rvs) domain of Sortin nexin 8 (Snx8), which can sense, stabilise and induce membrane curvature. These proteins are involved in intracellular protein transport from early endosomes to the trans-Golgi network. Its yeast counterpart, Mvp1 is required for sorting proteins to the vacuole.
Pfam PF10514: Pro-apoptotic Bcl-2 protein, BAD (family)
BAD is a Bcl-2 homology domain 3 (BH3)-only pro-apoptotic member of the Bcl-2 protein family that is regulated by phosphorylation in response to survival factors. Binding of BAD to mitochondria is thought to be exclusively mediated by its BH3 domain. Membrane localisation of BAD mediates membrane translocation of Bcl-XL. The C-terminal part of BAD is sufficient for membrane binding. There are two segments with differing lipid-binding preferences, LBD1 and LBD2, that are responsible for this binding: (i) LBD1 located in the proximity of the BH3 domain (amino acids 122-131) and (ii) LBD2, the putative C-terminal alpha-helix-5. Phosphorylation-regulated 14-3-3 protein binding may expose the cholesterol-preferring LBD1 and bury the LBD2, thereby mediating translocation of BAD to raft-like micro-domains.
Wikipedia: The BCL2 associated agonist of cell death (BAD) protein is a pro-apoptotic member of the Bcl-2 gene family which is involved in initiating apoptosis. BAD is a member of the BH3-only family, a subfamily of the Bcl-2 family. It does not contain a C-terminal transmembrane domain for outer mitochondrial membrane and nuclear envelope targeting, unlike most other members of the Bcl-2 family. After activation, it is able to form a heterodimer with anti-apoptotic proteins and prevent them from stopping apoptosis.
Pfam PF14111: Domain of unknown function (DUF4283) (domain)
This domain family is found in plants, and is approximately 100 amino acids in length. Considering the very diverse range of other domains it is associated with it is possible that this domain is a binding/guiding region.  There are two highly conserved tryptophan 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 PF03023: Lipid II flippase MurJ (family)
Peptidoglycan synthesis (PG) biosynthesis involves the formation of peptidoglycan precursor lipid II (undecaprenyl-pyrophosphate-linked N-acetyl glucosamine-N-acetyl muramic acid-pentapeptide) on the cytosolic face of the cell membrane. Lipid II is then translocated across the membrane and its glycopeptide moiety becomes incorporated into the growing cell wall mesh. MviN, renamed as MurJ, is a lipid II flippase essential for cell wall peptidoglycan synthesis. MurJ belongs to the MVF (mouse virulence factor) family of MOP superfamily transporters, which also includes the MATE (multidrug and toxic compound extrusion) transporter and eukaryotic OLF (oligosaccharidyl-lipid flippase) families. In addition to the canonical MOP transporter core consisting of 12 transmembrane helices (TMs), MurJ has two additional C-terminal TMs (13 and 14) of unknown function. Structural analysis indicates that the N lobe (TMs 1-6) and C lobe (TMs 7-14) are arranged in an inward-facing N-shape conformation, rather than the outward-facing V-shape conformation observed in all existing MATE transporter structures. Furthermore, a hydrophobic groove is formed by two C-terminal transmembrane helices, which leads into a large central cavity that is mostly cationic. Mutagenesis studies, revealed a solvent-exposed cavity that is essential for function. Mutation of conserved residues (Ser17, Arg18, Arg24, Arg52, and Arg255) at the proximal site failed to complement MurJ function, consistent with the idea that these residues are important for recognizing the diphosphate and/or sugar moieties of lipid II. It has also been suggested that the chloride ion in the central cavity and a zinc ion at the beginning of TM 7 might be functionally important.
Wikipedia: The multidrug/oligosaccharidyl-lipid/polysaccharide (MOP) flippase superfamily is a group of integral membrane protein families. The MOP flippase superfamily includes twelve distantly related families, six for which functional data are available:One ubiquitous family (MATE) specific for drugs - (TC# 2.A.66.1) The Multi Antimicrobial Extrusion (MATE) Family
One (PST) specific for polysaccharides and/or their lipid-linked precursors in prokaryotes - (TC# 2.A.66.2) The Polysaccharide Transport (PST) Family
One (OLF) specific for lipid-linked oligosaccharide precursors of glycoproteins in eukaryotes - (TC# 2.A.66.3) The Oligosaccharidyl-lipid Flippase (OLF) Family
One (MVF) lipid-peptidoglycan precursor flippase involved in cell wall biosynthesis - (TC# 2.A.66.4) The Mouse Virulence Factor (MVF) Family
One (AgnG) which includes a single functionally characterized member that extrudes the antibiotic, Agrocin 84 - (TC# 2.A.66.5) The Agrocin 84 Antibiotic Exporter (AgnG) Family
And finally, one (Ank) that shuttles inorganic pyrophosphate (PPi) - (TC# 2.A.66.9) The Progressive Ankylosis (Ank) Family
Pfam PF20940: Sulfolobus spindle-shape virus 1, protein D-63 (family)
Protein D-63 from Sulfolobus spindle-shape virus 1 (SSV1) folds into a helix-turn-helix motif with the two helices running antiparallel to each other. It adopts a dimeric assembly and forms an antiparallel four-helix bundle. It might be involved in macromolecular assembly as an adaptor protein.
Pfam PF01979: Amidohydrolase family (domain)
This family of enzymes are a a large metal dependent hydrolase superfamily. The family includes Adenine deaminase [ec:3.5.4.2] that hydrolyses adenine to form hypoxanthine and ammonia. Adenine deaminases reaction is important for adenine utilisation as a purine and also as a nitrogen source. This family also includes dihydroorotase and N-acetylglucosamine-6-phosphate deacetylases, [ec:3.5.1.25] These enzymes catalyse the reaction N-acetyl-D-glucosamine 6-phosphate +  H2O  D-glucosamine 6-phosphate + acetate. This family includes the catalytic domain of urease alpha subunit. Dihydroorotases ([ec:3.5.2.3]) are also included.
Pfam PF00081: Iron/manganese superoxide dismutases, alpha-hairpin domain (domain)
superoxide dismutases (SODs) catalyse the conversion of superoxide radicals to hydrogen peroxide and molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the Mn/Fe-binding  family is one. In humans, there is a cytoplasmic Cu/Zn SOD, and a mitochondrial Mn/Fe SOD. N-terminal domain is a long alpha antiparallel hairpin.  A small fragment of YTRE_LEPBI matches well - sequencing error?
Wikipedia: Superoxide dismutase (SOD, EC 1.15.1.1) is an enzyme that alternately catalyzes the dismutation (or partitioning) of the superoxide (O−2) anion radical into normal molecular oxygen (O2) and hydrogen peroxide (H2O2). Superoxide is produced as a by-product of oxygen metabolism and, if not regulated, causes many types of cell damage. Hydrogen peroxide is also damaging and is degraded by other enzymes such as catalase. Thus, SOD is an important antioxidant defense in nearly all living cells exposed to oxygen. One exception is Lactobacillus plantarum and related lactobacilli, which use intracellular manganese to prevent damage from reactive O−2.
Pfam PF01041: DegT/DnrJ/EryC1/StrS aminotransferase family (domain)
The members of this family are probably all pyridoxal-phosphate-dependent aminotransferase enzymes with a variety of molecular functions. The family includes StsA [swissprot:P72454], StsC [swissprot:P77952]  and StsS. The aminotransferase activity was demonstrated for purified StsC protein as the L-glutamine:scyllo-inosose aminotransferase [ec:2.6.1.50], which catalyses the first amino transfer in the biosynthesis of the streptidine subunit of streptomycin.
Pfam PF20881: Phage G1 gp67, C-terminal domain (domain)
gp67 from Staphylococcus virus G1 binds to the sigma(A)-subunit of the RNA polymerase (RNAP) of its host to block cell growth by inhibiting transcription. This protein is organized in two domains, an N-terminal beta-sheet-rich domain and a C-terminal alpha-helical domain, which are connected by a linker-alpha-helix on the surface of gp67 opposite the interaction surface. This entry includes the C- terminal domain and the helical linker.
Pfam PF23928: Family of unknown function (DUF7266) (family)
This entry represents uncharacterised archaeal 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 PF06260: Protein of unknown function (DUF1024) (family)
This family consists of several hypothetical Staphylococcus aureus and Staphylococcus aureus phage phi proteins. 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.