SII-SWORD/CoKE huggingface dataset:
Pfam PF00622: SPRY domain (domain)
SPRY Domain is named from SPla and the RYanodine Receptor and it is found in many eukaryotic proteins with a wide range of functions. It is a protein-interaction module involved in many important signalling pathways like RNA processing, regulation of histone H3 methylation, innate immunity or embryonic development. It can be divided into 11 subfamilies based on amino acid sequence similarity or the presence of additional protein domains. The greater SPRY family is divided into the SPRY/B30.2 (which contains a PRY extension at the N-terminal) and SPRY-only sub-families which are preceded by a subdomain that is structurally similar to the PRY region. SPRY/B30.2 structures revealed a bent beta-sandwich fold comprised of two beta-sheets. Distant homologues are domains in butyrophilin/ marenostrin/pyrin.
Wikipedia: SplA/ryanodine receptor domain and SOCS box containing 3 is a protein that in humans is encoded by the SPSB3 gene.
Pfam PF17653: Family of unknown function (DUF5522) (family)
This is a family of unknown function. Family members are found in Bacteria and Eukaryotes. In algae, this family is found on the N-terminal of diphthamide synthase family [pfam:PF01902] and is predicted to be a membrane transporter belonging to The ATP-binding Cassette (ABC) family. In nematoda, it is found on the N-terminal side of ribosomal protein family L14 [pfam:PF00238]. It is also found on the N-terminal of Cob(I)alamin adenosyltransferase [pfam:PF01923] in other eukaryotes. Family members found in homo sapiens such as [swissprot:Q5VUE5], have been shown to be highly expressed in 15 high-grade neuroendocrine tumor cell lines and YAP1-positive small-cell lung cancer cell lines as well as being up-regulated in two human Multiple Myloma cell lines in response to selective nuclear export inhibitor KPT-276. The HMM profile of this family reveals 4 highly conserved cysteines.
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 PF10344: Hobbit/FMP27/BTLP2 family (repeat)
This entry represents the Hobbit protein from Drosophila melanogaster and its homologues such as the mitochondrial FMP27 protein from yeast (also known as Hob1) and BLTP2 (also known as KIAA0100) from human. These proteins are localized to endoplasmic reticulum-plasma membrane (ER-PM) contact sites described as conserved lipid-binding proteins. They are tube-forming transport proteins which bind to phosphatidylinositols and affect phosphatidylinositol-4,5-bisphosphate (PtdIns-4,5-P2) distribution. They belong to the repeating beta-groove (RBG) superfamily together with VPS13, ATG2, SHIP164, Csf1/BLTP1 proteins, which are all conserved lipid transfer proteins containing long hydrophobic grooves. They all share the same structure consisting of multiple repeating modules comprising five beta-sheets followed by a loop.
Pfam PF13343: Bacterial extracellular solute-binding protein (family)
This family includes bacterial extracellular solute-binding proteins.
Pfam PF09311: Rabaptin-like protein (coiled_coil)
Members of this family are predominantly found in Rabaptin and allow for binding to the GTPase Rab5. This interaction is necessary and sufficient for Rab5-dependent recruitment of Rabaptin5 to early endosomal membranes.
Pfam PF16056: Domain of unknown function (DUF4799) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in eukaryotes. Proteins in this family are typically between 362 and 1493 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 PF17137: Domain of unknown function (DUF5110) (family)
This domain is likely to be a carbohydrate-binding domain of some description as it is found immediately C-terminal to the glycosyl-hydrolase family Glyco_hydro_31, [pfam:PF01055].
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 PF07585: Putative beta barrel porin-7 (BBP7) (family)
This is a family of putative beta barrel porin-7 BBP7 proteins identified initially in Rhodopirellula baltica.
Pfam PF14242: Domain of unknown function (DUF4342) (family)
This family of proteins is found in bacteria. Proteins in this family are typically between 97 and 206 amino acids in length. There is a single completely conserved residue P that may be functionally important.
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 PF12217: Catalytic beta propeller domain of bacteriophage endosialidase (repeat)
This domain family is found in bacteria and viruses, and is typically between 443 and 460 amino acids in length. This domain is the highly conserved beta propeller of bacteriophage endosialidase which represents the catalytically active part of the enzymes. This core domain forms stable SDS-resistant trimers. There is a nested beta barrel domain in this domain ([pfam:PF12195]). The endosialidase protein complexes to form a homotrimeric molecule.
Pfam PF21787: TNP-like, RNase H N-terminal domain (domain)
This entry represents the N-terminal segment of the RNase H domain from Drosophila Transposable element P transposase (TNP) and its homologue from human, THAP9. The catalytic RNase H domain in these proteins is interrupted by the GTP-binding insertion domain (GBD).
Pfam PF23156: Domain of unknown function (DUF7054) (domain)
This domain is found in the uncharacterized protein At4g22758 from Arabidopsis thaliana and related proteins. It shares significant sequence similarity with CRIM domain and it is predicted to adopt a similar structure with ubiquitin-like topology.
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 PF11596: Protein of unknown function (DUF3246) (family)
This is a small family of fungal proteins one of whose members, [swissprot:A3LUS4] from Pichia stipitis is described as being an extremely serine rich protein-mucin-like protein.
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 PF21149: Fatty acid synthase, pseudo-KR domain (domain)
Fatty acid synthase is a multifunctional enzyme that catalyses the de novo biosynthesis of long-chain saturated fatty acids, starting from acetyl-CoA and malonyl-CoA in the presence of NADPH. This entry represents the pseudo-ketoreductase (pseudo-KR) domain which is catalytically inactive and supports the integrity of the active KR domain.
Pfam PF11116: Protein of unknown function (DUF2624) (family)
This family is conserved in the Bacillaceae family.  Several members are named as YqfT. The function is not known.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF18235: Oligosaccharyltransferase Peripheral 2 domain (domain)
This is a domain found in the C-terminal region of STT3 present in P. furiosus. STT3 is an Oligosaccharyltransferase which catalyzes the transfer of a heptasaccharide, containing one hexouronate and two pentose residues, onto peptides in an Asn-X-Thr/Ser-motif-dependent manner. This domain, known as the Peripheral 2 (P2) domain, encircles the central core domain.
Pfam PF19569: START-like superfamily domain (domain)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are approximately 130 amino acids in length. This family appears to be distantly related to the START domain.
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 PF18453: Oligomerization domain of C4b-binding protein alpha (domain)
This is the C-terminal oligomerization domain found in C4b-binding protein (C4BP), which contains 14 cysteines that form 7 intermolecular disulfide bridges. C4BP is a plasma glycoprotein complex of 570 kDa, which is mainly produced in the liver. C4BP is the major inhibitor of complement activation, the major isoform consists of 7alpha and one beta-chain where each alpha-chain comprises eight complement control domain proteins (CCPs) and a C-terminal oligomerization domain. This domain carries a stretch of 42-45 amino acids that has been shown to be required for ring formation.
Pfam PF24482: XPB-like, C-terminal domain (domain)
This domain is found at the C-terminal end of TFIIH basal transcription factor complex helicase/translocase XPB subunit from Trypanosoma brucei and related proteins from similar species. This domain is predicted to adopt an alpha/beta configuration.
Pfam PF22023: Pus10 THUMP domain, archaeal (domain)
This entry represents the THUMP domain found in Pus10 proteins from archaea. Pus10 is a tRNA pseudouridine synthase responsible for the synthesis of pseudouridine from uracil-54 and uracil-55 in the psi GC loop of transfer RNAs.
Pfam PF05166: YcgL domain (domain)
This family of proteins formerly called DUF709 includes the E. coli gene ycgL. Homologues of YcgL are found in gammaproteobacteria. The structure of this protein shows a novel alpha/beta/alpha sandwich structure.
Pfam PF15160: Spermatogenesis-associated serine-rich protein 1 (family)
Spermatogenesis-associated serine-rich protein 1 is a serine-rich protein differentially expressed during spermatogenesis.
Pfam PF01130: CD36 family (family)
The CD36 family is thought to be a novel class of scavenger receptors.  There is also evidence suggesting a possible role in signal transduction. CD36 is involved in cell adhesion.
Pfam PF21406: Complement component 3, CUB domain, first segment (domain)
This entry represents the first segment of the CUB domain from complement component C3, which is completed but a second segment represented in [pfam:PF21308]. The CUB domain is interrupted by the TE domain. The CUB domain forms a massive, tightly packed super domain with the TE and  MG8 domains. These entry also includes venom factors, also known as Complement C3 homologues. These are complement-activating proteins with structural and functional similarities to complement component C3b, the activated form of C3.
Pfam PF06413: Neugrin (family)
This family consists of several mouse and human neugrin proteins. Neugrin and m-neugrin are mainly expressed in neurons in the nervous system, and are thought to play an important role in the process of neuronal differentiation.
Pfam PF20659: Malate synthase, C-terminal (domain)
Malate synthase (MS) catalyses the aldol condensation of glyoxylate with acetyl-CoA to form malate as part of the second step of the glyoxylate bypass and an alternative to the tricarboxylic acid cycle in bacteria, fungi and plants. There have been identified two isoforms, A and G (MSA and MSG, respectively) that differ in size and is attributed to an inserted alpha/beta domain in MSG that may have regulatory function. In malate synthases, the TIM beta/alpha-barrel fold and the C-terminal helical domain are well conserved and the cleft between them forms the active site. This entry represents the C-terminal domain which consists of a five-helix 'plug' connected to the barrel by an extended loop and caps the active site.
Pfam PF09863: Uncharacterized protein conserved in bacteria (DUF2090) (family)
This domain, found in various prokaryotic carbohydrate kinases, 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 PF04269: Protein of unknown function, DUF440 (family)
This family consists 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 PF19699: Calsyntenin C-terminal (family)
This is the cytoplasmic C-terminal domain of clasyntenin (CLSTN) proteins 1, 2 and 3 (also known as Alcadein-alpha, gamma and beta). These are postsynaptic Ca2-binding proteins, evolutionarily conserved type I membrane proteins. CLSTN forms a complex with APP and X11-like that stabilizes both APP and CLSTN proteins metabolically. CLSTN strongly associates with kinesin-1 light chains (KLC1) that induce kinesin-1 association with vesicles and functions as a novel cargo in axonal anterograde transport. This domain includes the WD motifs required for KLC1 interaction (although one WD motif is sufficient), and the NP motif.
Pfam PF15864: Protein glycosylation ligase (domain)
PglL_A is a pilin glycosylation ligase domain found in Gram negative bacteria. PglL protein O-oligosaccharyltransferases differ from the wider Wzy_C family, [pfam:PF04932], which contains both WaaL O-antigen ligases, in its substrate-specificity. PglL O-oligosaccharyltransferases (O-OTase) transfer oligosaccharide to serine or threonine in a protein. A further indication that the genes identified are PglL rather than WaaL homologues is that they are not located within lipopolysaccharide biosynthetic loci. The specific pilin glycosylation ligases are a subset of the more general bacterial protein o-oligosaccharyltransferases.
Pfam PF06947: Protein of unknown function (DUF1290) (family)
This family consists of several bacterial small basic 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 PF19261: Domain of unknown function (DUF5904) (domain)
This family represents a domain of unknown function that is found in Phycodnaviridae. This entry is likely to represent membrane proteins with four transmembrane regions.
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 PF15630: CENP-S protein (domain)
CENP-S is a family of vertebral and fungal kinetochore component proteins. CENP-S complexes with CENP-X to form a stable CENP-T-W-S-X heterotetramer.
Pfam PF12354: Bacterial adhesion/invasion protein N terminal (domain)
This domain family is found in bacteria, and is approximately 60 amino acids in length. The family is found in association with [pfam:PF00560], [pfam:PF08191], [pfam:PF09479]. There are two completely conserved residues (I and F) that may be functionally important. Internalin mediates bacterial adhesion and invasion of epithelial cells in the human intestine through specific interaction with its host cell receptor E-cadherin. This family is the N terminal of internalin, the cap domain of the protein. The cap domain is conserved between different internalin types. The cap domain does not interact with E cadherin, therefore its function is presumably structural: capping the hydrophobic core.
Pfam PF15935: RNase LS, bacterial toxin (domain)
RnlA_toxin is an RNase LS and a putative toxin of a bacterial toxin-antitoxin pair.  Toxin-antitoxin systems consist of a stable toxin and an unstable antitoxin. In this case, a novel type II system, RnlA is the stable toxin that causes inhibition of cell growth and rapidly degrades T4 late mRNAs to prevent their expression, and this is neutralised by the activity of the unstable antitoxin RnlB.
Pfam PF12474: Polo kinase kinase (family)
This domain family is found in eukaryotes, and is approximately 140 amino acids in length. The family is found in association with [pfam:PF00069]. Polo-like kinase 1 (Plx1) is essential during mitosis for the activation of Cdc25C, for spindle assembly, and for cyclin B degradation. This family is Polo kinase kinase (PKK) which phosphorylates Polo kinase and Polo-like kinase to activate them. PKK is a serine/threonine kinase.
Pfam PF04601: Beta-trefoil domain of unknown function (DUF569) (domain)
This entry represents a domain of unknown function that has a beta trefoil fold. Some family members contain a two or three copies of the domain.
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 PF17940: Tetracyclin repressor-like, C-terminal domain (domain)
This is the C-terminal domain found in putative transcriptional regulator, TetR family proteins.
Pfam PF15299: Amyotrophic lateral sclerosis 2 chromosomal region candidate gene 8 (family)
This domain is found in amyotrophic lateral sclerosis 2 chromosomal region candidate gene 8 protein.
Wikipedia: Amyotrophic lateral sclerosis 2 chromosomal region candidate gene 8 protein also known as calcium-response factor (CaRF) is a protein that in humans is encoded by the ALS2CR8 gene.
Pfam PF17845: FbpC C-terminal regulatory nucleotide binding domain (domain)
Most functional ABC transporters are composed of at least four sub-units: two trans-membrane (TM) domains where the transport process takes place and two cytoplasmic nucleotide binding domains (NBDs) providing the energy required for active transport. This entry is one of the two NBDs found at the the C-terminal domain of FbpC, ferric iron uptake transporter, from the Neisseria gonorrhoeae. The C-terminal regulatory domain adopts two OB-folds per monomer. These are similar in topology to those seen in the NBD (nucleotide binding domain) from the maltose uptake ABC transporter, MalK. However, FbpC does not open as far as MalK when ATP is removed from their respective closed structures. This difference was suggested to be due to the substantial domain swap in the regulatory domain of FbpC.
Pfam PF08236: SRI (Set2 Rpb1 interacting) domain (domain)
The SRI (Set2 Rpb1 interacting) domain mediates RNA polymerase II interaction and couples histone H3 K36 methylation with transcript elongation.  This domain is conserved from yeast to humans. Members of this family form a compact, closed three-helix bundle, with an up-down-up topology. The first and second helices are antiparallel to each other and are of similar length; the third helix, which is packed across helices alpha1 and alpha2 is slightly shorter, consisting of only 15 amino acids. Most conserved hydrophobic residues are largely buried in the interior of the structure and form an extensive and contiguous hydrophobic core that stabilises the packing of the three-helix bundle. This domain mediates RNA polymerase II interaction and couples histone H3 K36 methylation with transcript elongation.
Pfam PF20271: CATRA-Associated Small Protein (family)
Small, rapidly-evolving domain predicted to possess a compact, four-helix structure. Along with a gene encoding a TPR repeat region fused to a CASPASE domain and a gene encoding the CATRA module (CATRA-N+CATRA-C) C-terminally fused to a diverse range of conflict effector domains, forms the three gene island making up the CATRA conflict systems. Plays a possible inhibitory role in the CATRA system which is relieved upon sensing of an invasive molecule or is directly cleaved by the CASPASE domain.
Pfam PF12002: MgsA AAA+ ATPase C terminal (domain)
The MgsA protein possesses DNA-dependent ATPase and ssDNA annealing activities. MgsA contributes to the recovery of stalled replication forks and therefore prevents genomic instability caused by aberrant DNA replication. Additionally, MgsA may play a role in chromosomal segregation. This is consistent with a report that MgsA co-localises with the replisome and affects chromosome segregation.  This domain represents the C terminal region of MgsA.
Pfam PF24684: Virginiamycin B lyase family (repeat)
Virginiamycin B lyase enzymes inactivate type B streptogramin antibiotics by linearizing the lactone ring at the ester linkage. This reaction generates a free phenylglycine carboxylate and converts the threonyl moiety into 2-amino-butenoic acid. These enzymes play a crucial role in antibiotic resistance by neutralizing the antibacterial activity of streptogramins.