SII-SWORD/CoKE huggingface dataset:
Pfam PF02176: TRAF-type zinc finger (family)
This entry represents TRAF-type zinc finger domains. Some of the proteins that have this domain are mammalian signal transducers associated with the cytoplasmic domain of the 75kDa tumour necrosis factor receptor . A heterocomplex, homodimer or heterodimer of TRAF1 and TRAF2, binds to the N-terminal of the inhibitor of apoptosis proteins 1 and 2 (IAPS) and recruits them to the tumour necrosis factor receptor 2. Other proteins containing this domain include F45G2.6 protein from Caenorhabditis elegans and DG17 protein from Dictyostelium discoideum (Slime mold).
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.
Pfam PF02120: Flagellar hook-length control protein FliK (domain)
This is the C terminal domain of FliK. FliK controls the length of the flagellar hook by directly measuring the hook length as a molecular ruler.  This family also includes YscP of the Yersinia type III secretion system, and equivalent proteins in other pathogenic bacterial type III secretion systems.
Pfam PF22436: PilE, C-terminal (domain)
This domain is found at the C-terminal end of Type IV pili fiber building block protein from Francisella tularensis (PilE), which adopts the canonical Type IVa pilin fold, with an helix embedded in a four-stranded anti-parallel beta-sheet.
Pfam PF15028: Pre-T-cell antigen receptor (domain)
The pre-T-cell antigen receptor (pre-TCR), expressed by immature thymocytes, has a pivotal role in early T-cell development, including TCR beta-selection, survival and proliferation of CD4(-)CD8(-) double-negative thymocytes, and subsequent alpha/beta T-cell lineage differentiation. This protein contains an immunoglobulin domain.
Pfam PF20551: Family of unknown function (DUF6765) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria and archaea. Proteins in this family are typically between 352 and 375 amino acids in length. It contains the conserved motifs FHFxxxP, GH and PD, and a conserved Phe residue at the C-terminal.
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 PF01904: Protein of unknown function DUF72 (family)
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 PF19105: Family of unknown function (DUF5792) (family)
This family contains a domain of unknown function found in prasinoviruses.
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 PF03825: Nucleoside H+ symporter (family)
This family of proteins transports nucleosides at a high affinity. The transport mechanism is driven by proton motive force. This family includes nucleoside permease (NupG) and xanthosine permease (XapB) from Escherichia coli.
Pfam PF14281: PD-(D/E)XK nuclease superfamily (domain)
Members of this family belong to the PD-(D/E)XK nuclease superfamily.
Pfam PF04024: PspC domain (domain)
This family includes Phage shock protein C (PspC) that is thought to be a transcriptional regulator. The presumed domain is 60 amino acid residues in length.
Pfam PF18652: Adhesin P1 N-terminal domain (domain)
The cariogenic bacterium Streptococcus mutans uses adhesin P1 to adhere to tooth surfaces, extracellular matrix components, and other bacteria. The N terminus forms a stabilizing scaffold by wrapping behind the base of P1's elongated stalk and physically 'locking' it into place.  It is suggested that the N-terminal has such a pronounced impact on P1 immunogenicity, antigenicity, folding, stability, and adherent function.
Pfam PF06675: Protein of unknown function (DUF1177) (family)
This family consists of several hypothetical archaeal and and bacterial proteins of around 300 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 PF18171: SLOG in TRPM, prokaryote (family)
Family in the SLOG superfamily, fused to or operonically associating with SLATT domain in diverse prokaryotes. Predicted to function as ligand sensor in conjunction with the SLATT transmembrane domain.
Pfam PF04301: Pimeloyl-ACP methyl esterase BioG (family)
This protein family includes Pimeloyl-ACP methyl esterase BioG from Haemophilus influenzae ([swissprot:P44251]) and similar bacterial proteins. This enzyme is involved in the biosynthesis of pymeloyl-ACP and, hence, in biotin biosynthesis. It is organised into a a core domain formed by a seven-stranded beta-sheet and a lid domain consisting of four alpha-helices.
Pfam PF11028: Protein O-mannosyl-transferase TMEM260-like (family)
This family includes human Protein O-mannosyl-transferase TMEM260 and similar sequences from bacteria and eukaryota. TMEM260 transfers mannosyl residues to the hydroxyl group of serine or threonine residues of proteins.
Pfam PF12936: KRI1-like family C-terminal (family)
The yeast member of this family (Kri1p) is found to be required for 40S ribosome biogenesis in the nucleolus. This is the C-terminal domain of the family.
Pfam PF13127: Protein of unknown function (DUF3955) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria and eukaryotes. Proteins in this family are typically between 68 and 87 amino acids in length. There are two completely conserved residues (G and E) that may be functionally important.
Pfam PF01168: Alanine racemase, N-terminal domain (domain)
Alanine racemase plays a role in providing the D-alanine required for cell wall biosynthesis by isomerising L-alanine to D-alanine.

The molecular structure of alanine racemase from Bacillus stearothermophilus was determined by X-ray crystallography to a resolution of 1.9 A . The alanine racemase monomer is composed of two domains, an eight-stranded Î±/Î² barrel at the N terminus, and a C-terminal domain essentially composed of Î²-strands. The pyridoxal 5'-phosphate (PLP) cofactor lies in and above the mouth of the Î±/Î² barrel and is covalently linked via an aldimine linkage to a lysine residue, which is at the C terminus of the first Î²-strand of the Î±/Î² barrel.

This N-terminal domain is also found in the PROSC (proline synthetase co-transcribed bacterial homologue) family of proteins, which are not known to have alanine racemase activity.
Wikipedia: In enzymology, an alanine racemase is an enzyme that catalyzes the chemical reactionL-alanine  D-alanine
Pfam PF17655: Inward rectifier potassium channel C-terminal domain (domain)
This cytoplasmic C-terminal domain has an Ig fold.
Wikipedia: Inward-rectifier potassium channels (Kir, IRK) are a specific lipid-gated subset of potassium channels. To date, seven subfamilies have been identified in various mammalian cell types, plants, and bacteria. They are activated by phosphatidylinositol 4,5-bisphosphate (PIP2). The malfunction of the channels has been implicated in several diseases. IRK channels possess a pore domain, homologous to that of voltage-gated ion channels, and flanking transmembrane segments (TMSs). They may exist in the membrane as homo- or heterooligomers and each monomer possesses between 2 and 4 TMSs. In terms of function, these proteins transport potassium (K+), with a greater tendency for K+ uptake than K+ export. The process of inward-rectification was discovered by Denis Noble in cardiac muscle cells in 1960s and by Richard Adrian and Alan Hodgkin in 1970 in skeletal muscle cells.
Pfam PF13029: Domain of unknown function (DUF3890) (family)
This presumed domain is functionally uncharacterised. This domain family is found in bacteria, and is approximately 70 amino acids in length.
Pfam PF09181: Prolyl-tRNA synthetase, C-terminal (domain)
Members of this family are predominantly found in prokaryotic prolyl-tRNA synthetase. They contain a zinc binding site, and adopt a structure consisting of alpha helices and antiparallel beta sheets arranged in 2 layers, in a beta-alpha-beta-alpha-beta motif.
Pfam PF23040: Protein phosphatase Slingshot homolog 1-like, PH domain-like (domain)
This pleckstrin homology (PH)-like domain is found at the N- terminal end of human Protein phosphatase Slingshot homolog 1 (SSH1) and similar animal sequences. SSH1 is a a cofilin- specific phosphatase that regulates actin filament dynamica. This domain is essential for F-actin binding and F-actin- mediated activation of the activity of the protein.
Pfam PF12873: Domain of unknown function (DUF3825) (domain)
Potential uncharacterized enzymatic domain associated with bacterial [pfam:PF12872] domains.  Has conserved residues suggestive of an enzymatic role probably related to RNA metabolism.
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 PF23097: Nucleolar protein 10-like, second domain (domain)
This domain is found in human Nucleolar protein 10 (NOL10) and similar eukaryotic sequences. This domain is normally found N-terminal to [pfam:PF08159]. It is predicted to adopt an alpha -beta configuration.
Pfam PF17946: RecC C-terminal domain (domain)
This entry corresponds to the C-terminal domain of the RecC protein. This domain has a PD(D/E)XK like fold. Deleting this domain eliminates RecD assembly within the RecBCD complex.
Pfam PF09162: Tap, RNA-binding (domain)
Members of this family adopt a structure consisting of an alpha+beta sandwich with an antiparallel beta-sheet, arranged in a 2(beta-alpha-beta) motif. They are mainly found in mRNA export factors, and mediate the sequence nonspecific nuclear export of cellular mRNAs as well as the sequence-specific export of retroviral mRNAs bearing the constitutive transport element.
Pfam PF14947: Winged helix-turn-helix (domain)
This winged helix-turn-helix domain contains an extended C-terminal alpha helix which is responsible for dimerisation of this 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 PF15820: Endothelial cell-specific chemotaxis regulator (family)
ECSCR, endothelial cell-specific chemotaxis regulator, is a family of proteins found in eukaryotes. It is also known as ARIA for apoptosis regulator through modulating IAP expression. It is a cell surface protein that regulates endothelial chemotaxis and tube formation, and interacts with filamin A. Filamin A anchors transmembrane proteins to the actin cytoskeleton becoming a scaffold for various signalling proteins. ECSCR is also known to interact with and regulate the function of several endothelial transmembrane molecules. It has been shown to play a role in angiogenesis, a complex process involving the migration, proliferation, and lumen formation of blood vessels by endothelial cells. ECSCR appears also to regulate endothelial apoptosis, probably through modulating proteasomal degradation of cIAP-1 and cIAP-2 in endothelial cells.
Pfam PF01416: tRNA pseudouridine synthase (domain)
Involved in the formation of pseudouridine at the anticodon stem and loop of transfer-RNAs Pseudouridine is an isomer of uridine (5-(beta-D-ribofuranosyl) uracil, and id the most abundant modified nucleoside found in  all cellular RNAs. The TruA-like proteins also exhibit a conserved sequence with a strictly conserved aspartic acid, likely involved in catalysis.
Pfam PF13622: Acyl-CoA thioesterase N-terminal domain (domain)
This family contains a wide variety of enzymes, principally acyl-CoA thioesterases. These enzymes are part of the Hotdog fold superfamily. This entry is usually found as the N-terminal part of a pair of HotDog domains.
Pfam PF12509: Protein of unknown function (DUF3715) (family)
This domain family is found in eukaryotes, and is approximately 170 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 PF18112: Autophagy receptor zinc finger-C2H2 domain (domain)
This domain is found in calcium-binding and coiled-coil domain 2/NDP25 (CALCOCO2/NDP25) found in Homo sapiens. CALCOCO2/NDP25 is an ubiquitin-binding autophagy receptor involved in the selective autophagic degradation of invading pathogens. This domain is a typical C2H2-type zinc finger which specifically recognizes mono-ubiquitin or poly-ubiquitin chain. The overall ubiquitin-binding mode utilizes the C-terminal alpha-helix to interact with the solvent-exposed surface of the central beta-sheet of ubiquitin, similar to that observed in the RABGEF1/Rabex-5 or POLN/Pol-eta zinc finger.
Pfam PF04866: Rotavirus non-structural protein 6 (family)
This family comprises the 11kDa non-structural proteins found in segment S11 of the Rotavirus genome. They may form part of a complex that is involved in the replication of the genome.
Wikipedia: Non-structural Protein 6 (NSP6) is one of the two non-structural proteins that gene 11 in rotavirus encodes for alongside NSP5. It is a putative transmembrane domain protein. NSP6 is composed of six transmembrane domains and a C terminal tail. In contrast to the other rotavirus non-structural proteins, NSP6 was found to have a high rate of turnover, being completely degraded within 2 hours of synthesis. NSP6 was found to be a sequence-independent nucleic acid binding protein, with similar affinities for ssRNA and dsRNA
Pfam PF02300: Fumarate reductase subunit C (domain)
Fumarate reductase is a membrane-bound flavoenzyme consisting of four subunits, A-B. A and B comprise the membrane-extrinsic catalytic domain and C and D link the catalytic centres to the electron-transport chain. This family consists of the 15kD hydrophobic subunit C.
Pfam PF10964: Protein of unknown function (DUF2766) (family)
This family of proteins with unknown function appears to be restricted to Enterobacteriaceae.
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 PF22655: SpoU L30e-like domain (domain)
This domain is found in a number of rRNA methyltransferases that belong to SpoU family. They are composed of two domains: N-terminal, represented by this entry, RNA-binding domain and C-terminal domain responsible for AdoMet-binding, catalysis and dimerization.
Pfam PF09860: Uncharacterized protein conserved in bacteria (DUF2087) (family)
This domain, found in various hypothetical prokaryotic proteins and transcriptional activators, has no known function. 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.
Pfam PF21423: Pyrogallol hydroxytransferase large subunit-like, domain 1 (domain)
This domain is found at the N-terminal end of Pyrogallol hydroxytransferase large subunit from Pelobacter acidigallici (AthL), which is involved in the isomerisation of pyrogallol to phloroglucin. This protein contains four domains, all of them similar to the domains of the DMSO reductase family.
Pfam PF18710: ComR tetratricopeptide (repeat)
In Gram-positive bacteria, cell-to-cell communication mainly relies on extracellular signaling peptides. ComR is a member of the RNPP family, which positively controls competence for natural DNA transformation in streptococci. It is directly activated by the binding of its associated pheromone XIP. The crystal structure analysis of ComR shows that it contains an N-terminal helix-turn-helix (HTH), DNA binding domain (DBD) and a C-terminal tetratricopeptide repeat (TPR) domain. The TPR domain is composed of 11 alpha-helices forming 5 TPR motifs followed by an additional C-terminal alpha-helix 16 called CAP. The pheromone XIP binding site is found in the TPR region. Biochemical and mutational analysis indicate that, if the interacting XIP is accepted it can then trigger the conformational change of the TPR domain to open the DBD-TPR interface to allow dimer formation that is required to bind DNA.
Pfam PF12663: Protein of unknown function (DUF3788) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria and archaea. Proteins in this family are typically between 137 and 149 amino acids in length. This family may be distantly related to RelE 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 PF13868: Trichohyalin-plectin-homology domain (coiled_coil)
This family is a mixtrue of two different families of eukaryotic proteins. Trichoplein or mitostatin, was first defined as a meiosis-specific nuclear structural protein. It has since been linked with mitochondrial movement. It is associated with the mitochondrial outer membrane, and over-expression leads to reduction in mitochondrial motility whereas lack of it enhances mitochondrial movement.  The activity appears to be mediated through binding the mitochondria to the actin intermediate filaments (IFs). The family is in the trichohyalin-plectin-homology domain.
Pfam PF14271: Domain of unknown function (DUF4359) (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. There are two completely conserved residues (P and S) 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 PF16372: Domain of unknown function (DUF4984) (domain)
This domain is around 150 residues long and is located in the C-terminal of some uncharacterized proteins in various Bacteroides and Prevotella species. The function of this domain remains unknown.
Pfam PF17503: Family of unknown function (DUF5435) (family)
This is a family of unknown function found in Varicellovirus.
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 PF18726: SAV_6107-like HEPN (domain)
SAV_6107-like HEPN.
Pfam PF16164: VWA N-terminal (family)
This domain is found in von Willebrand factor proteins, where it is found to the N-terminus of the first VWA domain ([pfam:PF00092]).