SII-SWORD/CoKE huggingface dataset:
Pfam PF07786: Heparan-alpha-glucosaminide N-acetyltransferase, catalytic (domain)
This entry includes the catalytic domain of HGSNAT (Heparan-alpha-glucosaminide N-acetyltransferase). It contains the conserved histidine in the active site (His269), thought to hold the acetyl group during the transfer across the membrane and required for its enzymatic activity. HGSNAT transfers an acetyl group from cytoplasmically derived acetyl-CoA to terminal N-glucosamine residues of heparan sulfate within the lysosomes.
Pfam PF10549: ORF11CD3 domain (domain)
This domain was identified by Iyer and colleagues.
Pfam PF15503: Protein phosphatase 1 regulatory subunit 35 C-terminus (family)
This is the C-terminus of protein phosphatase 1 regulatory subunit 35. This protein interacts with and inhibits the serine/threonine-protein phosphatase PPP1CA.
Pfam PF14161: Centrosome-associated N terminus (family)
This is the N-terminus of a family of proteins that colocalise with the centrosome/microtubule organisation centre in interphase and at the spindle poles in mitosis.
Pfam PF09920: Uncharacterized protein conserved in archaea (DUF2150) (family)
This domain, found in various hypothetical archaeal proteins, has no known function.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF15217: TSC21 family (family)
This family of proteins is testis-specific.
Pfam PF07315: Protein of unknown function (DUF1462) (family)
This family consists of several hypothetical bacterial proteins of around 100 residues in length. The function of this family is unknown.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF13712: Glycosyltransferase like family (family)
Members of this family of prokaryotic proteins include putative glucosyltransferases, which are involved in bacterial capsule biosynthesis.
Pfam PF04100: Vps53, N-terminal (repeat)
Vps53 complexes with Vps52 and Vps54 to form a multisubunit complex called Golgi-Associated Retrograde Protein complex (GARP) involved in retrograde transport from early and late endosomes to late Golgi. They are members of the CATCHR (complexes associated with tethering containing helical rods) which includes the exocyst, COG, GARP, and DSL1 complexes which have structural and functional similarities. N-terminal coiled-coil domain.
Pfam PF24822: Family of unknown function (DUF7712) (domain)
This entry represents a small family of 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 PF11307: Protein of unknown function (DUF3109) (family)
This bacterial family of proteins has no known function.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF25023: Teneurin YD-shell (repeat)
Teneurins are ancient cell-cell adhesion receptors that are vital for brain development and synapse organisation. This entry represents the YD-shell domain which forms a hollow tube, consisting of a single up-and-down spiralling beta-sheet with 78 strands and shows similarity to structures of bacterial toxin complexes TcB-TcC. This domain is the most most structurally conserved region of teneurins and the TcB-TcC toxin complexes. This big domain comprises YD or rearrangement hotspot (Rhs) repeats.
Pfam PF13173: AAA domain (family)
This family of domains contain a P-loop motif that is characteristic of the AAA superfamily.
Wikipedia: AAA proteins are a large group of protein family sharing a common conserved module of approximately 230 amino acid residues. This is a large, functionally diverse protein family belonging to the AAA+ protein superfamily of ring-shaped P-loop NTPases, which exert their activity through the energy-dependent remodeling or translocation of macromolecules.
Pfam PF10131: 6-pyruvoyl-tetrahydropterin synthase related domain; membrane protein (family)
This domain is found in various bacterial hypothetical membrane proteins, as well as in tetratricopeptide TPR_2 repeat protein. The exact function of the domain has not, as yet, been established.
Pfam PF05815: Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf101 (family)
This family is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf101 (also known as Protein C42). It plays a role in host nuclear actin polymerization by recruiting p78/73 protein that is capable of activating an actin-related protein 2/3 complex to initiate nuclear actin polymerization.
Pfam PF10550: Conantokin toxin (domain)
The conantokins are a family of neuroactive peptides found in the venoms of fish-hunting cone snails. They possess a high content of gamma-carboxyglutamic acid (Gla) (4-5 residues), a non-standard amino-acid made by the post-translational modification of glutamate (Glu) residue. Conantokins are the only natural biochemically characterised peptides known to be N-methyl-D-aspartate (NMDA) receptor antagonists.
Pfam PF20620: Family of unknown function (DUF6805) (domain)
This presumed domain is functionally uncharacterised. This domain family is found in bacteria, and is approximately 130 amino acids in length. The family is found in association with [pfam:PF07944], [pfam:PF16375].
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 PF21136: Crossover junction endonuclease MUS81-like, winged helix domain (domain)
This domain is found in Crossover junction endonuclease MUS81 from humans and similar animal proteins. MUS81 forms a complex with EME1 that functions as a endonuclease that maintains genomic integrity by cleaving branched DNA structures arising during the recombination. This entry represents the winged helix (WH) domain from MUS81, which shows a recognition helix and a beta-hairpin 'wing' motif and is responsible for DNA binding.
Pfam PF01938: TRAM domain (domain)
This small domain has no known function. However it may perform a nucleic acid binding role (Bateman A. unpublished observation).
Pfam PF08435: Calicivirus coat protein C-terminal (family)
This is the calicivirus coat protein ([pfam:PF00915]) C-terminal region.
Pfam PF18734: AbiU2 (domain)
AbiU2-like HEPN
Pfam PF00252: Ribosomal protein L16p/L10e (domain)
This entry represents the large ribosomal subunit protein uL16 family, which is widespread among all cellular organisms. Members of this entry contain a single structural domain with an Î±/Î²-hammerhead fold (IPR016180).
uL16 is an essential protein in the large ribosomal subunit of bacteria, mitochondria, and chloroplasts. Large subunits that lack uL16 are defective in peptidyl transferase activity, peptidyl-tRNA hydrolysis activity, association with the 30S subunit, binding of aminoacyl-tRNA and interaction with antibiotics. uL16 is required for the function of elongation factor P (EF-P), a protein involved in peptide bond synthesis through the stimulation of peptidyl transferase activity by the ribosome. Mutations in uL16 and the adjoining bases of 23S rRNA confer antibiotic resistance in bacteria, suggesting a role for uL16 in the formation of the antibiotic binding site. The GTPase RbgA (YlqF) is essential for the assembly of the large subunit, and it is believed to regulate the incorporation of uL16. Bacterial, archaeal, and eukaryotic uL16 proteins exhibit structural differences at the N terminus .
Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites . About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits.

Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome .
Pfam PF15989: Domain of unknown function (DUF4768) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in eukaryotes. Proteins in this family are typically between 116 and 180 amino acids in length. There is a conserved FFFGQY 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 PF07760: Protein of unknown function (DUF1616) (family)
This is a family of sequences from hypothetical archaeal proteins.  The region in question is approximately 330 amino acid residues long.
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 PF19875: Family of unknown function (DUF6348) (family)
This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0002011) is described by MIBiG as an example of the following biosynthetic class, polyketide, in particular the ansacarbamitocin A biosynthetic gene cluster from Amycolatopsis alba  DSM 44262. This family appears to be predominantly found in  bacteria.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF10819: Protein of unknown function (DUF2564) (family)
This family of proteins with unknown function appears to be restricted to Bacillus spp.
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 PF24614: Transposon Tf2-1 polyprotein, C-terminal (domain)
This is the C-terminal region of Transposon Tf2-1 polyprotein from Schizosaccharomyces pombe (Tf2-1) and similar fungal sequences. Tf2-1 is a retrotransposon that belong to the gypsy-like elements. This region is predicted to adopt an all-alpha structure.
Pfam PF06798: PrkA serine protein kinase C-terminal domain (family)
This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This family corresponds to the C-terminal domain.
Pfam PF16143: Domain of unknown function (DUF4851) (family)
This family consists of several uncharacterized proteins around 250 residues in length and is mainly found in various Desulfovibrio species. The function of this family is unknown.
Pfam PF19880: Family of unknown function (DUF6353) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria and viruses. Proteins in this family are typically between 255 and 305 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 PF00084: Sushi repeat (SCR repeat) (domain)
The extracellular sushi domain is characterised by a consensus sequence spanning ~60 residues containing four invariant cysteine residues forming two disulfide-bridges (I-III and II-IV), a highly conserved tryptophan, and conserved glycine, proline, and hydrophobic residues . Sushi domains are known to be involved in many recognition processes, including the binding of several complement factors to fragments C3b and C4b . The sushi domain is also known as the complement control protein (CCP) module or the short consensus repeat (SCR).
Wikipedia: The selectins are a family of cell adhesion molecules. All selectins are single-chain transmembrane glycoproteins that share similar properties to C-type lectins due to a related amino terminus and calcium-dependent binding. Selectins bind to sugar moieties and so are considered to be a type of lectin, cell adhesion proteins that bind sugar polymers.
Pfam PF08472: Sucrose-6-phosphate phosphohydrolase C-terminal (domain)
This is the Sucrose-6-phosphate phosphohydrolase (S6PP or SPP) C-terminal domain as found in in plant sucrose phosphatases. These enzymes irreversibly catalyse the last step in sucrose synthesis following the formation of Sucrose-6-Phosphate via sucrose-phosphate synthase (SPS).
Pfam PF15240: Proline-rich protein (disordered)
This family includes several eukaryotic proline-rich proteins.
Pfam PF16695: Type VI secretion system (T6SS), amidase immunity protein (domain)
Tai4 is a new form of autoimmunity protein for a type VI secretion system, T6SS. T6SS has roles in interspecies interactions, as well as higher order host-infection, by injecting effector proteins into the periplasmic compartment of the recipient cells of closely related species. Pseudomonas aeruginosa produces at least three effector proteins to other cells and thus has three specific cognate immunity proteins to protect itself. Tae4, or type VI amidase effector 4, in Enterobacter cloacae has a cognate Tai4 or type VI amidase immunity 4 protein. The effector is Tae4, [pfam:PF14113].
Pfam PF23500: Domain of unknown function (DUF7133) (repeat)
This domain is found in a number of uncharacterised bacterial proteins. It is predicted to form a a six-bladed beta-propeller with significant similarity to glucose/sorbosone dehydrogenases.
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 PF15169: Cytochrome b-245 chaperone 1 / Eros (family)
Cytochrome b-245 chaperone 1, also known as Eros (essential for reactive oxygen species) in mice, is a transmembrane protein that may play a central role as a chaperone critical for expression of gp91phox and p22phox and hence for the cytochrome b558 heterodimer.
Pfam PF12757: Eisosome protein 1 (family)
Eisosome protein 1 is required for normal formation of eisosomes, large cytoplasmic protein assemblies that localize to specialised domains on plasma membrane and mark the site of endocytosis.
Pfam PF24159: FAKV Clamp protein (family)
This entry represents the Fako virus Clamp protein and related proteins. It folds into a complex alpha/beta structure.
Pfam PF02551: Acyl-CoA thioesterase (domain)
This family represents the thioesterase II domain.  Two copies of this domain are found in a number of acyl-CoA thioesterases.
Pfam PF10369: Small subunit of acetolactate synthase (domain)
ALS_ss_C is the C-terminal half of a family of proteins which are the small subunits of acetolactate synthase.  Acetolactate synthase is a tetrameric enzyme, containing probably two large and two small subunits, which catalyses the first step in branched-chain amino acid biosynthesis. This reaction is sensitive to certain herbicides.
Pfam PF15384: PAXX, PAralog of XRCC4 and XLF, also called C9orf142 (domain)
PAXX is a set of eukaryotic proteins that belong to the XRCC4 superfamily of DNA-double-strand break-repair proteins. PAXX interacts directly with DSB-repair protein Ku and is recruited to DNA-damage sites in cells thus functioning with XRCC4 and XLF to bring about DSB repair and cell survival in response to DSB-inducing agents.
Pfam PF15089: Regulator of DNA class I crossover intermediates 1-like (family)
This family of proteins mainly found in vertebrates includes mouse Regulator of DNA class I crossover intermediates 1 (Redic1). Redic1 is involved in recombination, probably acting by stabilising recombination intermediates during meiotic crossover formation. It is required for normal germline development and fertility as well as for meiotic progression, complete chromosomal synapsis and crossover formation. This protein binds double-stranded DNA.
Pfam PF05184: Saposin-like type B, region 1 (domain)
Saposin B is a small non-enzymatic glycoprotein required for the breakdown of cerebroside sulphates (sulphatides) in lysosomes. Saposin B contains three intramolecular disulphide bridges, exists as a dimer and is remarkably heat, protease, and pH stable. The crystal structure of human saposin B reveals an unusual shell-like dimer consisting of a monolayer of alpha-helices enclosing a large hydrophobic cavity. It is one of the most studied members of the saposin protein family and it is involved in the hydrolysis of glycolipids and glycerolipids. SapB is unique in the saposin family in that it facilitates degradation by interacting with the substrate, not the enzymes.
Wikipedia: The saposin domains refers to two evolutionally-conserved protein domains found in saposin and related proteins (SAPLIP). Saposins are small lysosomal proteins that serve as activators of various lysosomal lipid-degrading enzymes. They probably act by isolating the lipid substrate from the membrane surroundings, thus making it more accessible to the soluble degradative enzymes. All mammalian saposins are synthesized as a single precursor molecule (prosaposin) which contains four Saposin-B domains, yielding the active saposins after proteolytic cleavage, and two Saposin-A domains that are removed in the activation reaction.
Pfam PF12692: S-adenosyl-L-methionine methyltransferase (domain)
This domain is found in bacterial proteins.  The structure of the proteins in this family suggest that they function as a methyltransferase.
Pfam PF11889: Capsid protein C, pestivirus (domain)
This domain is found in the genome polyprotein from Pestivirus. It covers part of the capsid protein C region in the polyprotein.
Pfam PF03349: Outer membrane protein transport protein (OMPP1/FadL/TodX) (family)
This family includes TodX from Pseudomonas putida F1 [swissprot:Q51971] and TbuX from Ralstonia pickettii PKO1 [swissprot:Q9RBW8]. These are membrane proteins of uncertain function that are involved in toluene catabolism. Related proteins involved in the degradation of similar aromatic hydrocarbons are also in this family, such as CymD [swissprot:O33458]. This family also includes FadL involved in translocation of long-chain fatty acids across the outer membrane. It is also a receptor for the bacteriophage T2.
Wikipedia: Outer membrane transport proteins (OMPP1/FadL/TodX)  family includes several proteins that are involved in toluene catabolism and degradation of aromatic hydrocarbons. This family also includes protein FadL involved in translocation of long-chain
fatty acids across the outer membrane. It is also a receptor for the
bacteriophage T2.
Pfam PF19829: Family of unknown function (DUF6310) (family)
This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0001417) is described by MIBiG as an example of the following biosynthetic classes, NRP (non-ribosomal peptide) and polyketide, in particular the myxochromide D biosynthetic gene  cluster from Cystobacterineae bacterium. This family appears to be predominantly found in Cystobacterineae.
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.