SII-SWORD/CoKE huggingface dataset:
Pfam PF17391: Urocanase N-terminal domain (domain)
This entry represents the N-terminal domain found in Urocanase. It is found also in S-methyl thiourocanate hydratase which cannot use urocanate or thiourocanate as substrate and catalyses the conversion of S-methyl thiourocanate, to S-methyl-thiohydantoin-5-propanoate .
Urocanase  (also known as imidazolonepropionate hydrolase or urocanate hydratase) is the enzyme that catalyses the second step in the degradation of histidine, the hydration of urocanate into imidazolonepropionate:

urocanate + H2O = 4,5-dihydro-4-oxo-5-imidazolepropanoate

Urocanase is found in some bacteria (gene hutU) , in the liver of many vertebrates, and has also been found in the plant Trifolium repens (white clover). Urocanase is a protein of about 60 Kd, it binds tightly to NAD+and uses it as an electrophil cofactor. A conserved cysteine has been found to be important for the catalytic mechanism and could be involved in the binding of the NAD+.
Wikipedia: Urocanase is the enzyme that catalyzes the second step in the degradation of histidine, the hydration of urocanate into imidazolonepropionate.
Pfam PF23991: Coiled-coil region of unknown function (DUF7310) (coiled_coil)
This entry represents a coiled-coil region found in 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 PF19955: Effector-associated domain 1 (domain)
Effector-associated domains (EADs) are predicted to function as adaptor domains mediating protein-protein interactions. The EADs show a characteristic architectural pattern. One copy is always fused, typically to the N- or C-terminus, of a core component of a biological conflict system; examples include VMAP, iSTAND, or GAP1. Further copies of the same EAD are fused to either effector or signal-transducing domains, or additional EADs. EAD pairs are frequently observed together on the genome in conserved gene neighborhoods, but can also be severed from such neighborhoods and located in distant regions, indicating the EAD-EAD coupling approximates the advantages of collinear transcription. Profile-profile searches unify EAD1 with the Death superfamily of domains.
Pfam PF12275: Protein of unknown function (DUF3616) (repeat)
This family of proteins is found in bacteria. Proteins in this family are typically between 335 and 392 amino acids in length. There is a conserved GLRGPV 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 PF09107: Elongation factor SelB, winged helix (domain)
Members of this family adopt a winged-helix fold, with an alpha/beta structure consisting of three alpha-helices and a twisted three-stranded antiparallel beta-sheet, with an alpha-beta-alpha-alpha-beta-beta connectivity. They are involved in both DNA and RNA binding.
Pfam PF12479: Protein of unknown function (DUF3698) (family)
This domain family is found in eukaryotes, and is typically between 89 and 105 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 PF21998: Myosin-X FERM PH domain-like (domain)
This is the C-terminal PH domain of myosin-X FERM domain. FERM domain has a stable arrangement of 3 domains: N-terminal domains - ubiquitin-like, Middle domain - Acyl-CoA binding protein-like and C-terminal domain - PH domain-like.
Pfam PF14003: YlbE-like protein (family)
The YlbE-like protein family includes the B. subtilis protein YlbE [swissprot:O34958] which is functionally uncharacterised. This family of cytosolic proteins is found in bacteria. Proteins in this family are approximately 80 amino acids in length. There is a conserved WYR sequence motif.
Pfam PF09731: Mitochondrial inner membrane protein (family)
Mitofilin controls mitochondrial cristae morphology. Mitofilin is enriched in the narrow space between the inner boundary and the outer membranes, where it forms a homotypic interaction and assembles into a large multimeric protein complex. The first 78 amino acids contain a typical amino-terminal-cleavable mitochondrial presequence rich in positive-charged and hydroxylated residues and a membrane anchor domain.  In addition, it has three centrally located coiled coil domains.
Pfam PF13309: HTH domain (domain)
This domain is a helix-turn-helix domain that is likely to act as a DNA-binding domain.
Wikipedia: Helix-turn-helix is a DNA-binding domain (DBD). The helix-turn-helix (HTH) is a major structural motif capable of binding DNA. Each monomer incorporates two α helices, joined by a short strand of amino acids, that bind to the major groove of DNA. The HTH motif occurs in many proteins that regulate gene expression. It should not be confused with the helix–loop–helix motif.
Pfam PF01767: Birnavirus VP3 protein (family)
VP3 is a minor structural component of the virus. The large RNA segment of birnaviruses codes for a polyprotein (N-VP2-VP4-VP3-C).
Wikipedia: Birnaviridae is a family of double-stranded RNA viruses. Salmonid fish, birds and insects serve as natural hosts. There are currently 11 species in this family, divided among seven genera. Diseases associated with this family include infectious pancreatic necrosis in salmonid fish, which causes significant losses to the aquaculture industry, with chronic infection in adult salmonid fish and acute viral disease in young salmonid fish.
Pfam PF12835: Integrase (domain)
This is a family of DNA-binding prophage integrases found in Proteobacteria.
Pfam PF03970: Herpesvirus UL37 tegument protein (family)
UL37 interacts with UL36, which is thought to be an important early step in tegumentation during virion morphogenesis in the cytoplasm.
Pfam PF21486: Nucleoporin NUP120, helical domain (domain)
This entry represents the helical domain of Nup120 from S. pombe referred to as the irregular helical bundle (IHB), which makes extensive contacts with the propeller and helical bundle at the N-terminal. Nup120 functions as a component of the nuclear pore complex (NPC). Deletion of this gene causes clustering of NPCs at one side of the nuclear envelope, moderate nucleolar fragmentation and slower cell growth.
Pfam PF12775: P-loop containing dynein motor region (domain)
This domain is found in human cytoplasmic dynein-2 proteins. Cytoplasmic dynein-2 (dynein-2) performs intraflagellar transport and is associated with human skeletal ciliophathies. Dyneins share a conserved motor domain that couples cycles of ATP hydrolysis with conformational changes to produce movement. Structural analysis reveal that the motor's ring consists of six AAA+ domains (ATPases associated with various cellular activities (AAA1-AAA6). This is the third nucleotide binding sites in the dynein motor. However, AAA3 has lost the catalytic residues necessary for ATP hydrolysis (the Walker B glutamate, the arginine finger, sensor-I and sensor-II motifs).
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 PF06358: Beet necrotic yellow vein virus, movement protein TGB3 (family)
This family is represented by Beet necrotic yellow vein virus movement protein TGB3 (also known as p15) which participates in the transport of viral RNA to the plasmodesmata.
Pfam PF03414: Glycosyltransferase family 6 (family)
The biosynthesis of disaccharides, oligosaccharides and polysaccharides involves the action of hundreds of different glycosyltransferases. These enzymes catalyse the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. A classification of glycosyltransferases using nucleotide diphospho-sugar, nucleotide monophospho-sugar and sugar phosphates (2.4.1.-) and related proteins into distinct sequence based families has been described . This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. The same three-dimensional fold is expected to occur within each of the families. Because 3-D structures are better conserved than sequences, several of the families defined on the basis of sequence similarities may have similar 3-D structures and therefore form 'clans'.
Glycosyltransferase family 6 GT6 comprises enzymes with three known activities; alpha-1,3-galactosyltransferase (2.4.1.151); alpha-1,3 N-acetylgalactosaminyltransferase (2.4.1.40); alpha-galactosyltransferase (2.4.1.37).
Wikipedia: Ase may refer to:Ase, Nigeria, a town in Delta State, Nigeria
-ase, a suffix used for the names of enzymes
Aṣẹ, a Yoruba philosophical and religious concept
American Sign Language
Pfam PF07318: Protein of unknown function (DUF1464) (family)
This family consists of several hypothetical archaeal proteins of around 350 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 PF15004: Myeloma-overexpressed-like (family)
This family of proteins is found in eukaryotes. It includes human myeloma-overexpressed gene 2 protein. Proteins in this family are typically between 45 and 74 amino acids in length. There are two conserved sequence motifs: MKP and DEMF. The function of this family is unknown.
Pfam PF00139: Legume lectin domain (domain)
Lectins are carbohydrate-binding proteins. Leguminous lectins form one of the largest lectin families and resemble each other in their physicochemical properties, though they differ in their carbohydrate specificities. They bind either glucose/mannose or galactose . Carbohydrate-binding activity depends on the simultaneous presence of both a calcium and a transition metal ion . The exact function of legume lectins is not known, but they may be involved in the attachment of nitrogen-fixing bacteria to legumes and in the protection against pathogens .

Some legume lectins are proteolytically processed to produce two chains, beta (which corresponds to the N-terminal) and alpha (C-terminal) . The lectin concanavalin A (conA) from jack bean is exceptional in that the two chains are transposed and ligated (by formation of a new peptide bond). The N terminus of mature conA thus corresponds to that of the alpha chain and the C terminus to the beta chain . Though the legume lectins monomer is structurally well conserved, their quaternary structures vary widely .
Wikipedia: The legume lectins are a family of sugar-binding proteins or lectins found in the seeds and, in smaller amounts, in the roots, stems, leaves and bark of plants of the family Fabaceae. The exact function of the legume lectins in vivo is unknown but they are probably involved in the defense of plants against predators. Related proteins in other plant families and in animals have also been found. They have been used for decades as a model system for the study of protein-carbohydrate interactions, because they show a wide variety of binding specificities and are easy to obtain, purify, and characterize the structure of. Well-studied members of this protein family include phytohemagglutinin, soybean agglutinins, and concanavalin A.
Pfam PF15813: Domain of unknown function (DUF4708) (family)
This family of proteins is found in eukaryotes.
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 PF20125: Family of unknown function (DUF6515) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are typically between 194 and 339 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 PF15512: Chromatin assembly factor complex 1 subunit p60, C-terminal (disordered)
This entry represents the C-terminal domain of chromatin assembly factor 1 subunit B (CAF1B) from animals. CAF1B forms the CAF-1 complex alongside CAF1A and CAF1C, which plays important roles in DNA synthesis and repair and participates in the progression of various malignancies. CAF1B interacts with the two Anti-Silencing Factor (ASF1) paralogues ASF1a and ASF1b in order to contribute in DNA replication and repair-coupled chromatin assembly. This domain has been suggested to interact with ASF1 in order to facilitate the transfer of histones H3-H4 to CAF-1 through an interacting motif called B domain. This domain also has what is known as a PEST box, a region enriched in P, E, S, T and D residues, which has been correlated to short in vivo half-lives.
Pfam PF12005: Protein of unknown function (DUF3499) (family)
This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 125 to 163 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 PF16670: Phosphoinositide phospholipase C, Ca2+-dependent (domain)
PI-PLC-C1 is a family of calcium 2+-dependent phosphatidylinositol-specific phospholipase C1 enzymes from bacteria and fungi.  The enzyme classification number is [ec:3.1.4.11]. This enzyme is involved in part of the myo-inositol phosphate metabolic pathway.
Pfam PF09713: Plant protein 1589 of unknown function (A_thal_3526) (domain)
This plant-specific family of proteins is defined by an uncharacterised region 57 residues in length. It is found toward the N terminus of most proteins that contain it. Examples include at least several proteins from Arabidopsis thaliana and Oryza sativa. The function of the proteins are unknown.
Pfam PF19860: Family of unknown function (DUF6334) (family)
This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0001543) is described by MIBiG as an example of the following biosynthetic class, polyketide, in particular the chejuenolide A biosynthetic gene cluster from Hahella chejuensis.
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 PF14429: C2 domain in Dock180 and Zizimin proteins (domain)
The Dock180/Dock1 and Zizimin proteins are atypical GTP/GDP exchange factors for the small GTPases Rac and Cdc42 and are implicated  cell-migration and phagocytosis. Across all Dock180 proteins, two regions are conserved: C-terminus termed CZH2 or DHR2 (or the  Dedicator of cytokinesis) whereas CZH1/DHR1 contain a new family of the C2 domain.
Pfam PF10346: Conidiation protein 6 (family)
Con-6 is the conserved N-terminal region of a family of small proteins found in fungi. It is expressed at approximately 6 hours after the induction of development and is induced just prior to major constriction-chain growth.
Pfam PF15192: TMEM213 family (family)
This family of proteins is found in eukaryotes. Proteins in this family are typically between and 154 amino acids in length. The function of this family is unknown.
Pfam PF16774: Distal tail protein, N-terminal domain (domain)
This domain is found at the N-terminal end of Distal tail protein from Lactococcus phage p2 (Dit) and similar sequences predominantly found in Siphoviridae and bacterial prophages from Lactobacillales.  Dit has a structural role and forms the distal part of the tail. It is organised into two domains, a ring domain that shows a split (this entry) barrel-like fold and a C-terminal galectin domain. Consecutive Dit N-terminal domains form a tight ring with two layers of beta-strands. This ring frames a channel sufficiently large for dsDNA passage. This protein is involved in the process of viral genome ejection through the host cell envelope using a long flexible tail mechanism. The Distal tail protein forms the distal part of the tail structure and plays a role in DNA ejection. It self-associates as two rings that are arranged back to back, creating a central channel through which the DNA is ejected into the host cell. Additionally, it interacts with the receptor binding protein, facilitating the attachment of the phage to the host cell. At the structural level, the Distal tail protein is composed of homohexameric subunits.
Pfam PF21593: Family of unknown function (DUF6853) (family)
This protein family includes NMB0500 from Neisseria meningitidis and similar bacterial uncharacterised proteins. NMB0500 has an all-alpha structure. Its function 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 PF09511: RNA ligase (family)
Members of this family include T4 phage proteins with ATP-dependent RNA ligase activity. Host defence to phage may include cleavage and inactivation of specific tRNA molecules; members of this family act to reverse this RNA damage. The enzyme is adenylated, transiently, on a Lys residue in a motif KXDGSL. This family also includes fungal tRNA ligases that have adenylyltransferase activity.  tRNA ligases are enzymes required for the splicing of precursor tRNA molecules containing introns.i
Pfam PF05336: L-rhamnose mutarotase (domain)
This family contains L-rhamnose mutarotase which is a glycosyl hydrolase that converts the monosaccharide L-rhamnopyranose from the alpha to the beta stereoisomer.  In Escherichia coli this enzyme is the product of the rhaM gene (also known as yiiL). The tertiary structure has been solved, in complex with L-rhamnose,  and the catalytic mechanism determined.  His22 is the proton donor.  The enzyme naturally exists as a dimer.
Pfam PF13157: Endospore appendages (domain)
The surface of Bacillus and Clostridium endospores is decorated with long filamentous endospores appendages that resemble pili from Gram- negative and Gram-positive bacteria. They show two morphologies, the main or Staggered-type (S-Ena) which accounts for 90% of the fibres, and the Ladder-like (L-Ena) which is smaller and less abundant. They are a novel class of Gram-positive pili, consisting in single domain subunits with a jellyroll topology comprised by two juxtaposed beta-sheets. This domain represents the S-Ena core. Disulfide bonding through the N-terminal connector peptide that precedes this domain stabilizes longitudinally the fibres, bridging the helical turns. This results in flexible pili, highly resistant to environmental harsh such as heat, drought, and chemical damage.
Pfam PF20615: Family of unknown function (DUF6802) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are typically between 101 and 135 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 PF08209: Sgf11 (transcriptional regulation protein) (family)
The Sgf11 family is a SAGA complex subunit in Saccharomyces cerevisiae.  The SAGA complex is a multisubunit protein complex involved in transcriptional regulation. SAGA combines proteins involved in interactions with DNA-bound activators and TATA-binding protein (TBP), as well as enzymes for histone acetylation and deubiquitylation.
Pfam PF22995: BIRD-IDD transcription factor, third C2HC zinc finger (domain)
This C2HC zinc finger domain is found in the BIRD/INDETERMINATE DOMAIN (IDD) transcription factor family. Members of this BIRD/IDD family such as JACKDAW (JKD)/IDD10, BALDIBIS (BIB), MAGPIE (MGP)/IDD3 are required for asymmetric cell division of ground tissue and QC specification by direct protein-protein interaction with SHR and/or SCR to control ground tissue patterning during root growth. SHR-SCR functions as a transcription cofactor by binding to the zinc finger domains ot these transcription factors. Members of the BIRD/IDD family contain 4 zinc finger domains, two classical C2H2 followed by two C2HC zinc finger domains. This entry represents the third C2HC zinc finger domain that is involved in interaction with SHR-SCR and in DNA binding.
Pfam PF19214: Coronavirus spike glycoprotein S2, intravirion (domain)
This entry represents the cysteine rich intravirion region found at the C-terminus of coronavirus spike proteins (S). These cysteine residues are targets for palmitoylation, necessary for efficiently S incorporation into virions and S-mediated membrane fusions.