SII-SWORD/CoKE huggingface dataset:
Pfam PF00147: Fibrinogen beta and gamma chains, C-terminal globular domain (domain)
This entry represents the C-terminal globular D domain of the alpha, beta and gamma chains. These domains are related to domains in other proteins: in the Parastichopus parvimensis (Sea cucumber) fibrogen-like FreP-A and FreP-B proteins; in the C terminus of the Drosophila scabrous protein that is involved in the regulation of neurogenesis, possibly through the inhibition of R8 cell differentiation; and in ficolin proteins, which display lectin activity towards N-acetylglucosamine through their fibrogen-like domains .
Fibrinogen plays key roles in both blood clotting and platelet aggregation. During blood clot formation, the conversion of soluble fibrinogen to insoluble fibrin is triggered by thrombin, resulting in the polymerisation of fibrin, which forms a soft clot; this is then converted to a hard clot by factor XIIIA, which cross-links fibrin molecules. Platelet aggregation involves the binding of the platelet protein receptor integrin Î±(IIb)-Î²(3) to the C-terminal D domain of fibrinogen . In addition to platelet aggregation, platelet-fibrinogen interaction mediates both adhesion and fibrin clot retraction.
Wikipedia: Fibrinogen is a glycoprotein complex, produced in the liver, that circulates in the blood of all vertebrates. During tissue and vascular injury, it is converted enzymatically by thrombin to fibrin and then to a fibrin-based blood clot. Fibrin clots function primarily to occlude blood vessels to stop bleeding. Fibrin also binds and reduces the activity of thrombin. This activity, sometimes referred to as antithrombin I, limits clotting. Fibrin also mediates blood platelet and endothelial cell spreading, tissue fibroblast proliferation, capillary tube formation, and angiogenesis and thereby promotes revascularization and wound healing.
Pfam PF04667: cAMP-regulated phosphoprotein/endosulfine conserved region (family)
Conserved region found in both cAMP-regulated phosphoprotein 19 (ARPP-19) and Alpha/Beta endosulfine. No function has yet been assigned to ARPP-19.  Endosulfine is the endogenous ligand for the ATP-dependent potassium (K ATP) channels which occupy a key position in the control of insulin release from the pancreatic beta cell by coupling cell polarity to metabolism.  In both cases the region occupies the majority of the protein.
Pfam PF08897: Domain of unknown function (DUF1841) (domain)
This family of proteins are functionally uncharacterised.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF25152: CD59 glycoprotein (family)
This entry represents the human CD59 glycoprotein and related proteins. CD59 is a cell-surface glycoprotein that protects host cells from complement-mediated lysis. It binds to and prevents the normal functioning of the complement proteins C8 and C9 which form part of a membrane penetrating assembly called the membrane attack complex. CD59 folds into a compact domain with a central three-stranded antiparallel beta-sheet and a two-stranded antiparallel beta-sheet located on one side of it. This structure is stabilised by disulfide bonds and has a significant similarity to the snake venom neurotoxins and other members of the uPAR/Ly6/CD59/snake toxin-receptor superfamily. CD59 binds the pore-forming beta-hairpins of C8 to form an intermolecular beta-sheet that prevents membrane perforation. While bound to C8, CD59 deflects the cascading C9 beta-hairpins, rerouting their trajectory into the membrane.
Pfam PF02029: Caldesmon (disordered)
This group of proteins includes two protein families: caldesmon and lymphocyte specific protein.

Caldesmon (CDM) is an actin-and myosin-binding protein implicated in the regulation of actomyosin interactions in smooth muscle and non-muscle cells, possibly acting as a bridge between myosin and actin filaments . CDM is believed to be an elongated molecule, with an N-terminal myosin/calmodulin-binding domain and a C-terminal tropomyosin/actin/calmodulin-binding domain, separated by a 40nm-long central helix .

A high-molecular-weight form of CDM is predominantly expressed in smooth muscles, while a low-molecular-weight form is widely distributed in non-muscle tissues and cells (the protein is not expressed in skeletal muscle or heart).
Pfam PF23339: PTHB1 C-terminal helix bundle (domain)
This entry represents the C-terminal helix bundle (CtH) found in PTHB1 protein (also known as Bardet-Biedl syndrome 9 protein, BBS9). This protein forms a part of the BBSome complex, which is required for ciliogenesis. PTHB1 is the major binding subunit of IFT38 C-terminal domain, which assists the BBSome in some of its roles.
Pfam PF10110: Membrane domain of glycerophosphoryl diester phosphodiesterase (family)
Members of this family comprise the membrane domain of the prokaryotic enzyme glycerophosphoryl diester phosphodiesterase.
Pfam PF20536: Family of unknown function (DUF6751) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in Firmicutes bacteria. Proteins in this family  are typically 115 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 PF21613: Pesticin, receptor binding domain (domain)
This domain is found at the N-terminal end of Pesticin from Yersinia pestis (Pst). Pst is a toxin that kills related bacteria of the same niche as Y.pestis. It is organised into three domains: an N-terminal translocation domain, the intermediate receptor binding domain (RB, this entry), and a C-terminal activity domain ([pfam:PF16754]). This domain shows a beta-sheet of seven anti-parallel beta-strands together with three helices. It is essential for the intimate contact with the outer membrane protein receptor.
Pfam PF23506: YqgH (family)
This protein family includes Protein YqgH from Escherichia coli, a 27-residues micropeptide encoded by a small open reading frame (smORF). Proteins 50 or fewer residues-long have been shown to regulate the functions of larger proteins in a variety of organisms.
Pfam PF18047: PatG Domain (domain)
This is a domain found in PatG proteins, these proteins are involved in prfocessing the precursor peptide to yield the cyclic Patellamide. PatG can be found in Prochloron sp.
Pfam PF21108: Midasin AAA+ ATPase lid domain (domain)
Mdn1 is an essential AAA (ATPase associated with various activities) protein that removes assembly factors from distinct precursors of the ribosomal 60S subunit. This entry represents the AAA domain lid domain.
Pfam PF12364: Protein of unknown function (DUF3648) (family)
This family of proteins is found in eukaryotes and viruses. Proteins in this family are typically between 53 and 3115 amino acids in length. There are two completely conserved residues (A and F) 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 PF00881: Nitroreductase family (domain)
The nitroreductase family comprises a group of FMN- or FAD-dependent and NAD(P)H-dependent enzymes able to metabolize nitrosubstituted compounds.
Wikipedia: Nitroreductases are a family of evolutionarily related proteins involved in the reduction of nitrogen-containing compounds, including those containing the nitro functional group. Members of this family utilise flavin mononucleotide as a cofactor and are often found to be homodimers.
Pfam PF19316: GPI ethanolamine phosphate transferase membrane region (family)
This entry corresponds to the transmembrane region of the GPI ethanolamine phosphate transferase enzymes. The family includes the PIGO and PIGG proteins from human. These proteins are involved in the pathway glycosylphosphatidylinositol-anchor biosynthesis.
Pfam PF08361: MAATS-type transcriptional repressor, C-terminal region (domain)
This domain is named after the various transcriptional regulatory proteins that it contains, including MtrR ([swissprot:Q6RV06]), AcrR ([swissprot:P34000]), ArpR ([swissprot:Q9KJC4]), TtgR ([swissprot:Q9AIU0]) and SmeT ([swissprot:Q8KLP4]). These are members of the TetR family of transcriptional repressors, that are involved in the control of expression of multidrug resistance proteins. This domain binds multiple drugs, antibiotics, flavonoids and indole (Matilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).
Pfam PF14450: Cell division protein FtsA (domain)
FtsA is essential for bacterial cell division, and co-localises to  the septal ring with FtsZ. It has been suggested that the interaction of FtsA-FtsZ has arisen through coevolution in different bacterial strains.  The FtsA protein contains two structurally related  actin-like ATPase domains which are also structurally related to the ATPase domains of HSP70 (see PF00012). FtsA has a SHS2 domain  PF02491 inserted in to the RnaseH fold PF02491.
Pfam PF22318: Domain of unknown function (DUF6971) (domain)
This is a domain of unknown function found at the N-terminal end.
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 PF09195: Restriction endonuclease BglII (domain)
Members of this family are predominantly found in prokaryotic restriction endonuclease BglII, and adopt a structure consisting of an alpha/beta core containing a six-stranded beta-sheet surrounded by five alpha-helices, two of which are involved in homodimerisation of the endonuclease. They recognise the double-stranded DNA sequence AGATCT and cleave after A-1, resulting in specific double-stranded fragments with terminal 5'-phosphates.
Wikipedia: BglII is a type II restriction endonuclease isolated from certain strains of Bacillus globigii.
Pfam PF22803: Glycan binding domain Y3 (domain)
This entry represents the domain present in the glycan-binding protein Y3 from Coprinus comatus (pdb: 5v6i). The structure of this domain is characterized by an alpha-beta-alpha sandwich motif, which includes three alpha-helices and a five-stranded beta-sheet. Typically, this domain is characterized by the presence of four intramolecular disulfide bridges.
Pfam PF09082: Domain of unknown function (DUF1922) (domain)
This entry represents a putative zinc finger domain. Proteins containing this domain typically consist of a beta-sheet region followed by an alpha-helix and an unstructured C-terminus. The beta-sheet region contains a CXCX...XCXC sequence with Cys residues located in two proximal loops and pointing towards each other. The precise function of this set of bacterial proteins is, as yet, 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 PF10139: Putative bacterial virulence factor (family)
Members of this family of prokaryotic proteins include various putative virulence factor effector proteins. Their exact function is, as yet, unknown.
Pfam PF16755: NUP159/214 beta propeller (repeat)
This entry represents the beta-propeller found in the nuclear pore complex proteins 159 and 146 (NUP159 and NUP146) from yeast and NUP214 from animals. These proteins play a critical role in mRNA nuclear export. Mutations in the beta-propeller domain abolish binding to DP5 in yeast or DDX19 in humans, dead box helicases required for nuclear pore export function.
Pfam PF20231: Family of unknown function (DUF6589) (family)
This entry represents a fungal protein family of unknown 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 PF01499: Herpesvirus UL25 family (family)
The herpesvirus UL25 gene product is a virion component involved in virus penetration and capsid assembly.  The product of the UL25 gene is required for packaging but not cleavage of replicated viral DNA. This family includes a number of herpesvirus proteins: EHV-1 36, EBV BVRF1 [swissprot:P03233], HCMV UL77 [swissprot:P16726], ILTV ORF2 [swissprot:P23987], and VZV gene 34 [swissprot:P09287].
Pfam PF00982: Glycosyltransferase family 20 (family)
Members of this family belong to glycosyl transferase family 20. OtsA (Trehalose-6-phosphate synthase) is homologous to regions in the subunits of yeast trehalose-6-phosphate synthase/phosphate complex,.
Pfam PF15575: Immunity protein 49 (family)
A predicted immunity protein with an all alpha-helical fold and a conserved proline residue. Proteins containing this domain are present in bacterial polymorphic toxin systems as an immediate gene neighbour of the toxin gene, usually containing a domain of the Tox-REAse-1 or Tox-REase-6 families.
Pfam PF22111: Decaheme cytochrome c component MtrC/MtrF N-terminal domain (domain)
This entry represents the N-terminal domain of the decaheme cytochrome c component MtrC from the MtrCAB complex and its homologue MtrF, which is part of the MtrFDE complex. In Shewanella oneidensis, these proteins are at bacterial cell surface at the termini of trans-outer-membrane electron transfer conduits and allow the utilization of extracellular mineral forms of iron and manganese as respiratory electron acceptors. MtrC/MtrF consist of four domains: domain I and III containing seven antiparallel beta-strands in an extended Greek key topology; domains II and IV each bind five tightly packed hemes covalently attached to the Cys residues of the five CXXCH motifs in each domain and form the central core, flanked by domains I and III. This entry represents domain I (N-terminal) of MtrC/MtrF.
Pfam PF08077: Chloramphenicol resistance gene leader peptide (family)
This family consists of chloramphenicol (Cm) resistance  gene leader peptides. Inducible resistance to Cm in both  Gram positive and Gram negative bacteria is controlled  by translation attenuation. In translation attenuation,  the ribosome-binding-site (RBS) for the resistance  determinant is sequestered in a secondary structure domain  within the mRNA. Preceding the secondary structure is a  short, translated ORF termed the leader. Ribosome stalling  in the leader causes the destabilization of the downstream  secondary structure, allowing initiation of translation  of the Cm resistance gene.
Pfam PF05966: Chordopoxvirus A33R protein (family)
This family consists of several Chordopoxvirus A33R proteins. A33R plays a role in promoting Ab-resistant cell-to-cell spread of virus and interacts with A36R to incorporate the protein into the outer membrane of intracellular enveloped virions (IEV).
Pfam PF03647: Transmembrane proteins 14C (family)
This family of short membrane proteins are as yet uncharacterised.
Pfam PF21805: Imm-5 like putative immunity protein (domain)
This domain is similar to the [pfam:PF14423] domain which is predicted to be an immunity protein in bacterial toxin-antitoxin systems. This suggests a similar immunity function for proteins in this family.
Pfam PF11829: Protein of unknown function (DUF3349) (family)
This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 99 to 124 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 PF16630: Unstructured region on APC between 1st and 2nd catenin-bdg motifs (disordered)
APC_u5 is a short region of natively unstructured sequence lying between the first and the second 15-residue beta-catenin binding motifs, APC_15aa, [pfam:PF05972], on APC or adenomatous polyposis coli proteins in higher eukaryotes.  The function is not known.
Pfam PF15032: Protein of unknown function (DUF4529) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in eukaryotes. The proteins contain a conserved VLPPLK sequence motif.
Pfam PF17843: MycE methyltransferase N-terminal (domain)
This is the N-terminal domain found in MycE from the mycinamicin biosynthetic pathway.  MycE is a tetramer of a two-domain polypeptide, comprising a C-terminal catalytic MT domain and an N-terminal auxiliary domain, which is important for quaternary assembly and for substrate binding.
Wikipedia: Sterol carrier proteins is a family of proteins that transfer steroids and probably also phospholipids and gangliosides between cellular membranes.
Pfam PF20574: Family of unknown function (DUF6783) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are typically between 61 and 97 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 PF22327: U8 snoRNA-decapping enzyme-like (domain)
This entry represents the NUDIX hydrolase domain of U8 snoRNA -decapping enzyme from Xenopus laevis (Nudt16) and similar proteins from animals and bacteria. Nudt16 was initially described as an RNA-binding and decapping enzyme but it was later reported to be specialised in the removal of hazardous (deoxy)inosine diphosphate from the nucleotide pool. It adopts a canonical NUDIX fold, an alpha-beta-alpha sandwich constituted by two beta-sheets whose strands interact in a way that could also be described as a single extended beta-sheet.
Pfam PF11729: nodavirus capsid protein (family)
The capsid or coat protein of this family is expressed in Nodaviridae, that are ssRNA positive-strand viruses, with no DNA stage. These viruses are the causative agents of viral nervous necrosis in marine fish.
Pfam PF22825: HpiC1 cyclase (family)
This entry represents the homologues of HpiC1, a Stig cyclase that catalyzes the formation of 12-epi-hapalindole U. This enzyme folds into a beta-sandwich with jelly-roll topology that is distantly related to galactose-binding domains. HpiC1 has two integral Ca2+ ions, each with octahedral coordination geometry. Ca2+ ions are required for catalytic activity.
Pfam PF15091: Domain of unknown function (DUF4554) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in some vertebrates. This family includes human protein C11orf80.
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 PF25003: Domain of unknown function (DUF7781) (domain)
This domain is found in uncharacterised plant proteins. It is predicted to fold into a beta-meander that coils to form an open barrel-like structure.
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 PF19014: Family of unknown function (DUF5743) (family)
A highly conserved domain of unknown function found in various Platyhelminthes.
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 PF12063: Atg1-like, MIT domain 1 (domain)
Members of this entry are serine/threonine-protein kinases and includes ATG1 from yeasts, Unc-51 from C. elegans and ULK1-2 from humans. ATG1 is required for vesicle formation in autophagy and the cytoplasm-to-vacuole targeting (Cvt) pathway. Unc-51 is important for axonal elongation and axonal guidance and ULK1-2 are involved in autophagy in response to starvation. They consist of a kinase domain at the N-terminal ([pfam:PF00069]) and two tandem microtubule interacting and transport (MIT) domains (tMIT) at the C-terminal. MIT domains are known to mediate protein-protein interactions. In ATG1, MIT domains mediate the interaction with ATG13. In ULK1-2, MIT domains control the regulatory function and localization of the proteins and also mediate interactions with additional autophagy proteins. This is the C-terminal MIT domain (MIT2).
Pfam PF16175: Domain of unknown function (DUF4875) (family)
Small protein family, with members present in few proteobacteria mostly Desulfovibrio species, but also  a Vibrio phage vB, suggesting a possible phage origin Experimentally determined structure shows a fold  reminiscent of a thioesterase/thiol ester dehydrase-isomerase  fold, but a functional consequences of this similarity are not clear