SII-SWORD/CoKE huggingface dataset:
Pfam PF18527: STT3/PglB C-terminal beta-barrel domain (domain)
Asparagine-linked glycosylation is a post-translational modification of proteins containing the conserved sequence motif Asn-X-Ser/Thr. The attachment of oligosaccharides is implicated in diverse processes such as protein folding and quality control, organism development or host-pathogen interactions. The reaction is catalysed by oligosaccharyltransferase (OST), a membrane protein complex located in the endoplasmic reticulum. The central, catalytic enzyme of OST is the STT3 subunit, which has homologues in bacteria and archaea. Structural analysis of a bacterial OST, undecaprenyl-diphosphooligosaccharide protein glycotransferase [ec:2.4.99.19] (PglB) protein, revealed two domains: a transmembrane domain and a periplasmic domain. This entry represents the C-terminal periplasmic beta-barrel domain.
Pfam PF10726: Protein of function (DUF2518) (family)
This family is conserved in Cyanobacteria. Several members are annotated as the protein Ycf51.  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 PF01871: AMMECR1 (family)
This family consists of several AMMECR1 as well as several uncharacterised proteins. The contiguous gene deletion syndrome AMME is characterised by Alport syndrome, midface hypoplasia, mental retardation and elliptocytosis and is caused by a deletion in Xq22.3, comprising several genes including COL4A5, FACL4 and AMMECR1. This family contains sequences from several eukaryotic species as well as archaebacteria and it has been suggested that the AMMECR1 protein may have a basic cellular function, potentially in either the transcription, replication, repair or translation machinery.
Wikipedia: In molecular biology, the AMMECR1 protein is a protein encoded by the AMMECR1 gene on human chromosome Xq22.3.
Pfam PF12966: N-ATPase, AtpR subunit (family)
Membrane protein with three predicted transmembrane segments, two of which contain conserved Arg residues. AtpR genes are found in the N-ATPase (archaeal-type F1-Fo-ATPase) operons and are predicted to interact with the conserved Glu/Asp residues in the c subunits, regulating the assembly and/or function of the membrane-embedded ring of 'c' (proteolipid) subunits (PFAM:PF00137).
Pfam PF09864: Membrane-bound lysozyme-inhibitor of c-type lysozyme (domain)
Lysozymes are ancient and important components of the innate immune system of animals that hydrolyse peptidoglycan, the major bacterial cell wall polymer. Various mechanisms have evolved by which bacteria can evade this bactericidal enzyme, one being the production of lysozyme inhibitors. MliC (membrane bound lysozyme inhibitor of c-type lysozyme) of E. coli and Pseudomonas aeruginosa, possess lysozyme inhibitory activity and confer increased lysozyme tolerance upon expression in E. coli. Structural analyses show that the invariant loop of MliC plays a crucial role in the inhibition of the lysozyme by its insertion into the active site cleft of the lysozyme, where the loop forms hydrogen and ionic bonds with the catalytic residues.
Pfam PF04703: FaeA-like protein (domain)
This family represents a number of fimbrial protein transcription regulators found in Gram-negative bacteria. These proteins are thought to facilitate binding of the leucine-rich regulatory protein to regulatory elements, possibly by inhibiting deoxyadenosine methylation of these elements by deoxyadenosine methylase.
Pfam PF00737: Photosystem II 10 kDa phosphoprotein (family)
This protein is phosphorylated in a light dependent reaction.
Pfam PF19561: Family of unknown function (DUF6083) (family)
This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC00001735) is described by MIBiG as an example of the following biosynthetic class, other. This family includes a protein from the pentostatine biosynthetic gene cluster from Streptomyces  antibioticus and appears to be predominantly found in Streptomyces.
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 PF23381: IFT122 first beta-propeller (repeat)
IFT122 is one of the core components (together with WDR19/IFT144 and IFT140) of the IFT-A complex which is required for retrograde ciliary transport and entry into cilia of G protein-coupled receptors (GPCRs), being involved in cilia function and/or assembly. IFT-A polymerises interacts with IFT-B, and uses an array of beta-propeller and TPR domains to create 'carriages' of the IFT train that engage TULP adaptor proteins. This entry represents the first beta-propeller of IFT122, which is a crucial subunit for IFT-A integrity.
Pfam PF16290: Domain of unknown function (DUF4936) (family)
This family consists of uncharacterized proteins around 100 residues in length and is mainly found in various Burkholderiales species,  such as Herbaspirillum, Cupriavidus, Ralstonia and so on. The function of this family is unknown.
Pfam PF09361: Phasin protein (domain)
This entry describes a group of small proteins found associated with inclusions in bacterial cells. Most associate with polyhydroxyalkanoate (PHA) inclusions, the most common of which consist of polyhydroxybutyrate (PHB). These are designated granule-associate proteins or phasins.
Pfam PF13005: zinc-finger binding domain of transposase IS66 (domain)
This is a zinc-finger region of the N-terminus of the insertion element IS66 transposase.
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 PF07472: Fucose-binding lectin II (PA-IIL) (family)
In Pseudomonas aeruginosa the fucose-binding lectin II (PA-IIL) contributes to the pathogenic virulence of the bacterium. PA-IIL functions as a tetramer when binding fucose. Each monomer is comprised of a nine-stranded, antiparallel beta-sandwich arrangement and contains two calcium cations that mediate the binding of fucose in a recognition mode unique among carbohydrate-protein interactions.
Pfam PF00788: Ras association (RalGDS/AF-6) domain (domain)
RasGTP effectors (in cases of AF6, canoe and RalGDS); putative RasGTP effectors in other cases. Recent evidence (not yet in MEDLINE) shows that some RA domains do NOT bind RasGTP. Predicted structure similar to that determined, and that of the RasGTP-binding domain of Raf kinase.
Pfam PF21664: TBP-interacting protein, C-terminal domain (domain)
This entry represents the C-terminal domain of archaeal TATA-binding protein (TBP)-interacting proteins (TBPIPs). This domain contains two Cys and two His which coordinates a zinc ion. It forms an unusual Cys2His2-type zinc finger, not functional as a DNA-binding module.
Pfam PF24399: Family of unknown function (DUF7543) (family)
This entry represents a family of small uncharacterised proteins found mainly in Halobacteria. They are predicted to adopt a globular alpha/beta structure consisting of five-stranded beta-sheet and an alpha-helix packed on it.
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 PF17540: Family of unknown function (DUF5457) (family)
This is a family of unknown function found in Bacteria. Family members have one predicted trans-membrane region.
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 PF06101: Vacuolar protein sorting-associated protein 62 (family)
This protein family includes vacuolar protein sorting (VPS) proteins found, including Vps62 from Saccharomyces cerevisiae, and uncharacterised proteins predominantly found in fungi and plants. Vps62 is required for cytoplasm to vacuole targeting of proteins.
Pfam PF16376: N-terminal domain of fragilysin (domain)
N-terminal domain of fragilysin, an extracellular metalloprotease toxin, which is primary virulence       factor of B. fragilis, an oportunistic pathogen of human gut. The N-terminal domain of fragilysin  inhibits fragilysin and is cleaved in a mature, virulent form.
Pfam PF10645: Carbohydrate binding (domain)
This is a carbohydrate binding domain which has been shown in Schizosaccharomyces pombe to be required for septum localisation.
Pfam PF09156: Anthrax toxin lethal factor, middle domain (domain)
Members of this family, which are predominantly found in anthrax toxin lethal factor, adopt a structure consisting of a core of antiparallel beta sheets and alpha helices. They form a long deep groove within the protein that anchors the 16-residue N-terminal tail of MAPKK-2 before cleavage. It has been noted that this domain resembles the ADP-ribosylating toxin from Bacillus cereus, but the active site has been modified to augment substrate recognition.
Wikipedia: Anthrax toxin is a three-protein exotoxin secreted by virulent strains of the bacterium, Bacillus anthracis—the causative agent of anthrax. The toxin was first discovered by Harry Smith in 1954. Anthrax toxin is composed of a cell-binding protein, known as protective antigen (PA), and two enzyme components, called edema factor (EF) and lethal factor (LF). These three protein components act together to impart their physiological effects. Assembled complexes containing the toxin components are endocytosed. In the endosome, the enzymatic components of the toxin translocate into the cytoplasm of a target cell. Once in the cytosol, the enzymatic components of the toxin disrupt various immune cell functions, namely cellular signaling and cell migration. The toxin may even induce cell lysis, as is observed for macrophage cells. Anthrax toxin allows the bacteria to evade the immune system, proliferate, and ultimately kill the host animal. Research on anthrax toxin also provides insight into the generation of macromolecular assemblies, and on protein translocation, pore formation, endocytosis, and other biochemical processes.
Pfam PF20847: Paraneoplastic antigen 8A protein (family)
This entry represents the PNM8A protein.
Pfam PF11049: Glycoprotein K1 of Kaposi's sarcoma-associated herpes virus (domain)
This is a highly glycosylated cytoplasmic and membrane protein similar to the immunoglobulin receptor family that is expressed as an inducible early-lytic-cycle gene product in primary effusion lymphoma cell-lines. This domain would appear to be the cytoplasmic region of the protein.
Pfam PF21011: Tubulin-like CetZ, C-terminal domain (domain)
This is the C-terminal domain of CetZ proteins, which are tubulin-like proteins involved in control cell shape in Archaea and some bacteria. CetZ proteins are related with Tubulin/FtsZ, and has the Tubulin GTPase domain ([pfam:PF00091]) at the N-terminal. This domain has a two-layer alpha-beta structure with an alpha-helical extension.
Pfam PF09249: tRNA nucleotidyltransferase, second domain (domain)
Members of this family adopt a structure consisting of a five helical bundle core. They are predominantly found in Archaeal tRNA nucleotidyltransferase, following the catalytic nucleotidyltransferase domain.
Pfam PF04160: Orf-X protein (family)
This short protein has no known function and is found in Jaagsiekte sheep retrovirus. Jaagsiekte sheep retrovirus (JSRV) is the etiological agent of a contagious lung tumour of sheep known as sheep pulmonary adenomatosis. JSRV exhibits a simple genetic organisation, characteristic of the type D and type B retroviruses, with the canonical retroviral sequences gag, pro, pol and env encoding the structural proteins of the virion. An additional open reading frame (orf-x), of approximately 500 bp overlapping pol.
Pfam PF19502: Nucleotidyltransferase of unknown function (DUF6036) (domain)
This family of proteins is functionally uncharacterised. It belongs to the nucleotidyltransferase superfamily. This family of proteins is found in bacteria, archaea and viruses. Proteins in this family are typically between 172 and 232 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 PF23834: Domain of unknown function (DUF7204) (domain)
This domain family is found in viruses that infect Streptococcus thermophilus bacteria. All members are from Caudoviricetes viruses.  The domain is approximately 50 amino acids in length. The function of this domain is currently unknown.  An AlphaFold model shows these proteins adopt a compact domain composed of a three stranded beta sheet with a single alpha helix.
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 PF06685: Protein of unknown function (DUF1186) (repeat)
This family consists of several hypothetical bacterial proteins of around 250 residues in length and is found in several Chlamydia and Anabaena species. 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 PF09437: Pombe specific 5TM protein (family)
This entry represents a group of proteins containing five transmembrane regions. These proteins are found exclusively in Schizosaccharomyces pombe (Fission yeast).
Pfam PF14493: Helix-turn-helix domain (domain)
This presumed domain is found at the C-terminus of a large number of helicase proteins.
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 PF12270: Cytochrome c oxidase subunit IV (family)
This family of proteins is found in bacteria. Proteins in this family are approximately 140 amino acids in length. This family is the fourth subunit of the cytochrome c oxidase complex. This subunit does not have a catalytic capacity but instead, is required for assembly and/or stability of the complex.
Pfam PF17714: Family of unknown function (DUF5559) (family)
This is a family of unknown function found in primates.
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 PF17077: Mitotic spindle associated protein SHE1 (family)
She1 seems to be related to the spindle integrity function of the Dam1 complex. She1 is a dynein regulator and limits dynein offloading by gating the recruitment of dynactin to the astral microtubule plus end. Aurora B phosphorylates She1, modulating its potency against dynein.
Pfam PF01852: START domain (domain)
START (StAR-related lipid-transfer) is a lipid-binding domain in StAR, HD-ZIP and signalling proteins . StAR (Steroidogenic Acute Regulatory protein) is a mitochondrial protein that is synthesised in response to luteinising hormone stimulation . Expression of the protein in the absence of hormone stimulation is sufficient to induce steroid production, suggesting that this protein is required in the acute regulation of steroidogenesis. Representatives of the START domain family have been shown to bind different ligands such as sterols (StAR protein) and phosphatidylcholine (PC-TP). Ligand binding by the START domain can also regulate the activities of other domains that co-occur with the START domain in multidomain proteins such as Rho-gap, the homeodomain, and the thioesterase domain .
Wikipedia: START is a lipid-binding domain in StAR, HD-ZIP and signalling proteins. The archetypical domain is found in StAR, a mitochondrial protein that is synthesized in steroid-producing cells. StAR initiates steroid production by mediating the delivery of cholesterol to the first enzyme in the steroidogenic pathway. The START domain is critical for this activity, perhaps through the binding of cholesterol. Following the discovery of StAR, 15 START-domain-containing proteins were subsequently identified in vertebrates as well as other that are related.
Pfam PF00129: Class I Histocompatibility antigen, domains alpha 1 and 2 (domain)
Class I MHC glycoproteins are expressed on the surface of all somatic nucleated cells, with the exception of neurons. MHC class I receptors present peptide antigens that are synthesised in the cytoplasm, which includes self-peptides (presented for self-tolerance) as well as foreign peptides (such as viral proteins). These antigens are generated from degraded protein fragments that are transported to the endoplasmic reticulum by TAP proteins (transporter of antigenic peptides), where they can bind MHC I molecules, before being transported to the cell surface via the Golgi apparatus . MHC class I receptors display antigens for recognition by cytotoxic T cells, which have the ability to destroy viral-infected or malignant (surfeit of self-peptides) cells.

MHC class I molecules are comprised of two chains: a MHC alpha chain (heavy chain), and a beta2-microglobulin chain (light chain), where only the alpha chain spans the membrane. The alpha chain has three extracellular domains (alpha 1-3, with alpha1 being at the N terminus), a transmembrane region and a C-terminal cytoplasmic tail. The soluble extracellular beta-2 microglobulin chain associates primarily with the alpha-3 domain and is necessary for MHC stability. The alpha1 and alpha2 domains of the alpha chain are referred to as the recognition region, because the peptide antigen binds in a deep groove between these two domains.
This entry represents MHC antigen-recognition-like domains from:


 * MHC class I, alpha-1 and alpha-2 domains 
 * MHC class I homologue gammadelta T-cell ligand 
 * MHC class I related Ulbp3 
 * MHC class I related Fc (IgG) receptor, alpha-1 and alpha-2 domains 
 * MHC class I related CD1, alpha-1 and alpha-2 domains 
 * MHC class I related zinc-alpha-2-glycoprotein ZAG (fat depleting factor) 
 * Immunomodulatory protein m144, alpha-1 and alpha-2 domains 
 * Haemochromatosis protein Hfe, alpha-1 and alpha-2 domains 
 * Endothelial protein C receptor (phospholipid-binding protein) 
 * NK cell ligand RAE-1 . RAE-1 proteins (alpha, beta, delta, and gamma) are distant major histocompatibility complex (MHC) class I homologues, comprising isolated alpha-1 alpha-2 domains, and lack alpha3 domains .
Pfam PF19661: Family of unknown function (DUF6164) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are approximately 120 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 PF15185: Bcl-2-modifying factor, apoptosis (family)
BMF is thought to play a role in inducing apoptosis.  It is thought to bind to Bcl-2 proteins. This family of proteins is found in eukaryotes. Proteins in this family are typically between 75 and 190 amino acids in length. There are two conserved sequence motifs: GNA and DQF.
Pfam PF07301: CcdC protein (family)
This family includes protein CcdC from Bacillus subtilis. The function of Ccdc is not known.
Pfam PF06131: Schizosaccharomyces pombe repeat of unknown function (DUF963) (repeat)
This family consists of a series of repeated sequences from one hypothetical protein ([swissprot:Q96WV6]) found in Schizosaccharomyces pombe. 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 PF23273: Domain of unknown function (DUF7076) (domain)
This domain is found in a group of uncharacterised proteins mainly from fungi. It shares a significant sequence similarity of Ig-like domains found in Trs120 and it is predicted to adopt a structure with a similar 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.