SII-SWORD/CoKE huggingface dataset:
Pfam PF03395: Poxvirus P4A protein (family)
This entry represents Major core protein 4a precursor from Vaccinia virus (P4A), also known as Major core protein OPG136 precursor, and similar proteins from poxvirus. P4a is one of the most abundant structural proteins in the Vaccinia virion. It undergoes proteolytic processing during the immature virion (IV) to mature virion (MV) transition .
Pfam PF23113: E3 ubiquitin-protein ligase MARCHF6-like, C-terminal domain (domain)
This domain is found at the C-terminal end of human E3 ubiquitin -protein ligase MARCHF6 and similar eukaryotic sequences. MARCHF6 promotes 'Lys-48'-linked ubiquitination of target proteins, leading to their proteasomal degradation. This domain is predicted to adopt an all alpha-helical structure.
Pfam PF01768: Birnavirus VP4 protein (family)
VP4 is a viral protease. 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 PF19062: Family of unknown function (DUF5758) (family)
This is a family of uncharacterised proteins of unknown function found in viruses, as well as in bacteria. It is predicted to be a pentapeptide repeat-containing 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 PF18060: F actin bundling C terminal (domain)
This is the C-terminal domain found in 34 kDa F actin bundling protein. ABP34 is a calcium regulated actin binding protein that cross links actin filaments into bundles. Residues 216-244 in the C-domain are part of the strongest actin-binding sites (residue 193 residue 254) and have conserved sequences with the actin-binding regions of alpha-actinin and ABP120.
Pfam PF17080: Multidrug Resistance efflux pump (family)
SepA is a drug efflux protein that is involved in bacterial multidrug resistance. It is predicted to have four transmembrane domains.
Pfam PF15335: Caspase activity and apoptosis inhibitor 1 (family)
CAAP1, or caspase activity and apoptosis inhibitor 1, is a family of eukaryotic proteins involved in the regulation of apoptosis. It modulates a caspase-10 dependent mitochondrial caspase-3/9 feedback amplification loop.
Pfam PF24633: Domain of unknown function (DUF7630) (domain)
This presumed domain is found in uncharacterised sequences from Plasmodium falciparum and similar sequences from Apicomplexa. This domain may adopt a TNF receptor-like fold.
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 PF06298: Photosystem II protein Y (PsbY) (family)
This family consists of several bacterial and plant photosystem II protein Y (PsbY) sequences. PsbY is a manganese-binding protein that has an L-arginine metabolising enzyme activity.
Pfam PF23472: LYK3/4/5 LysM2 domain (domain)
This entry represents the second LysM domain found in proteins from plants, including LYK3 from Medicago truncatula, CERK1 and LYK4/5 from Arabidopsis thaliana. The LysM domain adopt a beta-alpha-alpha-beta fold, according to structure predictions. Arabidopsis thaliana has retained the root developmental response to chitin-derived signals, utilising a widely conserved pathway involving CERK1. LYK4 is a chitin-binding protein and contributes to chitin-triggered immunity. LYK5 has been identified as a receptor with a very high affinity to chitooligosaccharides. Medicago LYK3 has an active intracellular kinase and Medicago NFP has a pseudokinase domain.
Pfam PF02822: Antistasin family (domain)
Members of this family are inhibitors of trypsin family proteases. This domain is highly disulphide bonded. The domain is also found in some large extracellular proteins in multiple copies.
Pfam PF15215: Follicular dendritic cell secreted peptide (family)
Follicular dendritic cells (FDCs) are cells of the immune system found in lymph follicles. They play a central role in the organisation of the follicular structure that supports B cell survival, affinity maturation of Ab responses, and the generation of long-lived B cell memory. Follicular dendritic cell secreted peptide (FDC-SP) is a novel secreted protein expressed by follicular dendritic cells. Its role is unknown, but it has been suggested that it may regulate immune responses .
Wikipedia: FDC-SP or follicular dendritic cell-secreted protein, is a small, secreted protein, located on chromosome 4 in humans. It is thought to play an immune role in the junctional epithelium at the gingival crevice in the human mouth. It is very similar in structure to statherin, a protein contained in saliva.
Pfam PF20395: C-terminal domain 3 of the ABC-three component (ABC-3C) systems (domain)
C-terminal domains (CTDs) of ABC-3C systems, contain distinct patterns of charged and polar residues and are not yet unifiable with known domains. These domains are found at the C-terminus of the effector component of the systems, which are upstream of the Middle Component and ABC ATPase components on the genome. Due to the typically large size of these CTDs relative to the actual effector and MC domains, the CTDs are predicted to serves as the platform on which the remaining two components assemble. Therewith, conformational changes transmitted by the ABC ATPase-mediated detection of invasive elements like DNA viruses would result in an unfurling and activation of the CTD-associated effector.
Pfam PF23939: Domain of unknown function (DUF7274) (domain)
This entry represents a family of uncharacterised phage protein domains. The domain adopts a compact beta sheet made of six strands.
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 PF16274: Qua1 domain (domain)
This domain, approximately 40 residues in length, is  mainly found in KH-domain containing, RNA-binding, signal transduction-associated protein 1 from yeast to human. It forms a homodimer composed of  a perpendicular interaction of two helical hairpins, and the Qua1  domain is sufficient for homodimerization which is required for the  regulation of alternative splicing.
Pfam PF09404: KICSTOR complex C12orf66 like (family)
This entry includes C12orf66-like proteins. Human C12orf66 is part of the KICSTOR complex that functions in the amino acid-sensing branch of the TORC1 signaling pathway.
Pfam PF12051: Protein of unknown function (DUF3533) (family)
This family of transmembrane proteins is functionally uncharacterised. This protein is found in bacteria and eukaryotes. Proteins in this family are typically between 393 to 772 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 PF13800: Sigma factor regulator N-terminal (family)
This domain is found near the N-terminus of a sigma factor regulator. The N-terminus is responsible for interaction with the sigma factor.
Pfam PF02073: Thermophilic metalloprotease (M29) (family)
This group of metallopeptidases belong to MEROPS peptidase family M29 (aminopeptidase T family, clan M-). The protein fold of the peptidase domain and the active site residues are not known for any members of the thermophilic metallo-aminopeptidases family .
Pfam PF24532: Fibulin-2 domain (domain)
This domain is found at the N-terminal region of human Fibulin-2 (FIBL-2) and similar proteins from vertebrates. FIBL-2 binds to to fibronectin and some other ligands in a calcium dependent manner. It may act as an adapter that mediates the interaction between FBN1 and ELN.
Pfam PF16866: PHD-finger (domain)
This entry represents the PHD (homeodomain) zinc finger domain , which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger.

The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions.
Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates . Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few . Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target.
Wikipedia: The PHD finger was discovered in 1993 as a Cys4-His-Cys3 motif in the plant homeodomain proteins HAT3.1 in Arabidopsis and maize ZmHox1a. 
The PHD zinc finger motif resembles the metal binding RING domain (Cys3-His-Cys4) and FYVE domain. It occurs as a single finger, but often in clusters of two or three, and it also occurs together with other domains, such as the chromodomain and the bromodomain.
Pfam PF08182: Pedibin/Hym-346 family (family)
This family consists of the pedibin and Hym-346 signalling peptides.  These two peptides have been isolated from Hydra vulgaris and Hydra magnipapillata. Experiments have indicated that both cause a reduction in the positional value gradient, the principle patterning process governing the maintenance of form in the adult hydra. The peptides cause an increase in the rate of foot regeneration following bisection of the body column. Thus both play important signalling roles in patterning processes in cnidaria and maybe in more complex metazoans.
Pfam PF10130: PIN domain (domain)
Members of this family of bacterial domains are predicted to be RNases (from similarities to 5'-exonucleases).
Wikipedia: In molecular biology the PIN domain is a protein domain that is about 130 amino acids in length. PIN domains function as nuclease enzymes that cleave single stranded RNA in a sequence- or structure-dependent manner.
Pfam PF12762: ISXO2-like transposase domain (domain)
This domain probably functions as an integrase that is found in a wide variety of transposases, including ISXO2.
Pfam PF03145: Sina, TRAF-like domain (domain)
The seven in absentia (sina) gene was first identified in Drosophila. The Drosophila Sina protein is essential for the determination of the R7 pathway in photoreceptor cell development: the loss of functional Sina results in the transformation of the R7 precursor cell to a non- neuronal cell type. The Sina protein contains an N-terminal RING finger domain, through which it binds E2 ubiquitin-conjugating enzymes (UbcD1). Sina also interacts with Tramtrack (TTK88) via PHYL. Tramtrack is a transcriptional repressor that blocks photoreceptor determination, while PHYL down-regulates the activity of TTK88. In turn, the activity of PHYL requires the activation of the Sevenless receptor tyrosine kinase, a process essential for R7 determination. It is thought that thus Sina targets TTK88 for degradation, therefore promoting the R7 pathway. Murine and human homologues of Sina have also been identified, namely siah1/2. Siah-1 also binds E2 enzymes (UbcH5) and through a series of physical interactions, targets beta-catenin for ubiquitin degradation. Siah-1 expression is enhanced by p53, itself promoted by DNA damage. Thus this pathway links DNA damage to beta-catenin degradation. Sina proteins, therefore, physically interact with a variety of proteins. Following the RING domain, these proteins have  two zinc fingers and a TRAF-like domain, involved in interactions with other proteins. In addition to the Drosophila protein and mammalian homologues, this family also includes homologues from Caenorhabditis elegans and Arabidopsis thaliana. This entry represents the C-terminal TRAF-like domain.
Pfam PF03440: Aerolysin/Pertussis toxin (APT) domain (domain)
This family represents the N-terminal domain of aerolysin and pertussis toxin and has a type-C lectin like fold.
Pfam PF18501: Alpha helical recognition lobe domain (domain)
Cpf1 is an RNA-guided endonuclease of a type V CRISPR-Cas system. Cpf1 adopts a bilobed architecture consisting of an alpha-helical recognition (REC) lobe and a nuclease (NUC) lobe, with the small CRISPR RNAs (crRNAs)-target DNA heteroduplex bound to the positively charged, central channel between the two lobes. The REC lobe consists of the REC1 and REC2 domains where REC1 comprises 13 alpha helices, and REC2 comprises ten alpha helices and two beta strands that form a small antiparallel sheet. This entry represents REC1 domain.
Pfam PF24497: ATG1, MIT domain (domain)
This is the MIT domain found at the C-terminal of ATG1a/b/c proteins from Arabidopsis thaliana and related plant sequences. These proteins are serine/threonine protein kinases involved in autophagy. They form the ATG1-ATG13 protein kinase complex which initiates autophagosome formation and regulates downstream events required for autophagosome enclosure and/or vacuolar delivery.
Pfam PF20045: Family of unknown function (DUF6447) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are approximately 80 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 PF16654: Diaminopimelic acid dehydrogenase C-terminal domain (domain)
This family comprises the C-terminal domain of diaminopimelic acid dehydrogenase. Diaminopimelate dehydrogenase is a NADPH-dependent enzyme that catalyzes the oxidative deamination of meso-2,6-diaminopimelate, which is the direct precursor of L-lysine in bacterial lysine biosynthesis.
Wikipedia: In enzymology, a diaminopimelate dehydrogenase (EC 1.4.1.16) is an enzyme that catalyzes the chemical reactionmeso-2,6-diaminoheptanedioate + H2O + NADP+  L-2-amino-6-oxoheptanedioate + NH3 + NADPH + H+
Pfam PF16062: ADP-ribosylhydrolase MavL-like (family)
This entry represents a class of MavL-like macrodomain enzymes whose representative members show unique selectivity for mono-ADP-ribosylated arginine residue in synthetic substrates, including [swissprot:Q9W2W5] and [swissprot:Q9W4J9] from Drosophila melanogaster, which are distantly related to MavL from Legionella pneumophila. They are (ADP-ribosyl)hydrolases that share a mode of ADP-ribose interaction distinct from previously characterised macrodomains.
Pfam PF06537: Di-haem oxidoreductase, putative peroxidase (family)
DHOR is a family of di-haem oxidoredictases. It carries the two characteristic Cys-X-Y-Cys-His haem-binding motifs. The C-terminal high-potential site functions as an electron transfer centre, and the N-terminal low-potential site corresponds to the peroxidatic centre. Its probable function is as a peroxidase.
Pfam PF04530: Viral Beta C/D like family (family)
Family of ssRNA positive-strand viral proteins.  Conserved region found in the Beta C and Beta D transcripts.
Pfam PF20134: Family of unknown function (DUF6524) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are typically between 131 and 142 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 PF16019: Cysteine/serine-rich nuclear protein N-terminus (family)
This presumed domain is found at the N-terminus of cysteine/serine-rich nuclear proteins. These proteins act as transcriptional activators.
Pfam PF09422: APC membrane recruitment protein (disordered)
This entry includes APC membrane recruitment protein 1/2/3 (Amer1/2/3). Amer1, also known as WTX, binds to the tumour suppressor adenomatous polyposis coli and acts as an inhibitor of Wnt signaling by inducing beta-catenin degradation. Amer2 is a negative regulator of Wnt/beta-catenin signaling involved in neuroectodermal patterning. WTX is a novel gene mutated in a proportion of Wilms' tumors and in patients suffering from sclerosing bone dysplasia.
Pfam PF11981: Domain of unknown function (DUF3482) (family)
This presumed domain is functionally uncharacterised. This domain is found in bacteria and eukaryotes. This domain is typically between 289 to 301 amino acids in length. This domain is found associated with [pfam:PF01926]. The central region of these proteins contains a hydrophobic region that is similar to [pfam:PF05433].
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 PF20218: Family of unknown function (DUF6578) (family)
This family of proteins is functionally uncharacterised. This family of proteins is mainly found in Actinobacteria. Proteins in this family are typically between 132 and 185 amino acids in length. There are three conserved motifs, WQ, CCG and GxV.
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 PF11051: Mannosyltransferase putative (family)
This family is conserved in fungi. Several members are annotated as being alpha-1,3-mannosyltransferase but this could not be confirmed.
Pfam PF10497: Zinc-finger domain of monoamine-oxidase A repressor R1 (domain)
R1 is a transcription factor repressor that inhibits monoamine oxidase A gene expression. This domain is a four-CXXC zinc finger putative DNA-binding domain found at the C-terminal end of R1. The domain carries 12 cysteines of which four pairs are of the CXXC type.
Pfam PF07858: Limonene-1,2-epoxide hydrolase catalytic domain (domain)
Epoxide hydrolases catalyse the hydrolysis of epoxides to corresponding diols, which is important in detoxification, synthesis of signal molecules, or metabolism. Limonene-1,2- epoxide hydrolase (LEH) differs from many other epoxide hydrolases in its structure and its novel one-step catalytic mechanism. Its main fold consists of a six-stranded mixed beta-sheet, with three N-terminal alpha helices packed to one side to create a pocket that extends into the protein core. A fourth helix lies in such a way that it acts as a rim to this pocket. Although mainly lined by hydrophobic residues, this pocket features a cluster of polar groups that lie at its deepest point and constitute the enzyme's active site.
Wikipedia: In enzymology, a limonene-1,2-epoxide hydrolase (EC 3.3.2.8) is an enzyme that catalyzes the chemical reactionlimonene-1,2-epoxide + H2O  limonene-1,2-diol
Pfam PF10002: Predicted membrane protein (DUF2243) (family)
This domain, found in various hypothetical bacterial 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 PF16108: Domain of unknown function (DUF4826) (family)
This family consists of uncharacterized proteins around 150 residues in length and is mainly found in various Shewanella species. The function of this protein is unknown.
Pfam PF07131: Protein of unknown function (DUF1382) (family)
This family consists of several hypothetical Escherichia coli and bacteriophage lambda-like proteins of around 60 residues in length.  The function of this family is unknown. Structural modelling suggests this domain may bind nucleic acids.
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.