SII-SWORD/CoKE huggingface dataset:
Pfam PF07882: L-fucose isomerase, second N-terminal domain (domain)
The members of this family are similar to L-fucose isomerase expressed by E. coli ([swissprot:P11552], [ec:5.3.1.3]). This enzyme corresponds to glucose-6-phosphate isomerase in glycolysis, and converts an aldo-hexose to a ketose to prepare it for aldol cleavage.  The enzyme is a hexamer, with each subunit being wedge-shaped and composed of three domains. Both domains 1 and 2 contain central parallel beta- sheets with surrounding alpha helices. The active centre is shared between pairs of subunits related along the molecular three-fold axis, with domains 2 and 3 from one subunit providing most of the substrate-contacting residues.
Wikipedia: In enzymology, a L-fucose isomerase is an enzyme that catalyzes the chemical reactionL-fucose  L-fuculose
Pfam PF19351: Domain of unknown function (DUF5929) (domain)
This presumed domain is functionally uncharacterised. This domain family is found in flavobacteria, and is approximately 220 amino acids in length. The family is found to the C-terminus of [pfam:PF04326]. Proteins in this family vary in length from 377 to 380 amino 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 PF07230: Bacteriophage T4-like portal protein (Gp20) (family)
This family consists of several bacteriophage T4-like capsid assembly (or portal) proteins. The exact mechanism by which the double-stranded (ds) DNA bacteriophages incorporate the portal protein at a unique vertex of the icosahedral capsid is unknown. In phage T4, there is evidence that this vertex, constituted by 12 subunits of gp20, acts as an initiator for the assembly of the major capsid protein and the scaffolding proteins into a prolate icosahedron of precise dimensions. The regulation of portal protein gene expression is an important regulator of prohead assembly in bacteriophage T4.
Pfam PF02828: L27 domain (domain)
The L27 domain is found in receptor targeting proteins Lin-2 and Lin-7.
Wikipedia: The L27 domain is a protein domain that is found in receptor targeting proteins Lin-2 and Lin-7, as well as some protein kinases and human MPP2 protein. The L27 domain is a protein interaction module that exists in a large family of scaffold proteins, functioning as an organisation centre of large protein assemblies required for the establishment and maintenance of cell polarity. L27 domains form specific heterotetrameric complexes, in which each domain contains three alpha-helices.
The L27_2 domain is a protein-protein interaction domain capable of organising scaffold proteins into supramolecular assemblies by formation of heteromeric L27_2 domain complexes. L27_2 domain-mediated protein assemblies have been shown to play essential roles in cellular processes including asymmetric cell division, establishment and maintenance of cell polarity, and clustering of receptors and ion channels. Members of this family form specific heterotetrameric complexes, in which each domain contains three alpha-helices. The two N-terminal helices of each L27_2 domain pack together to form a tight, four-helix bundle in the heterodimer, whilst the third helix of each L27_2 domain forms another four-helix bundle that assembles the two units of the heterodimer into a tetramer.
Pfam PF11454: Protein of unknown function (DUF3016) (family)
This is a bacterial family of uncharacterised 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 PF07183: Protein of unknown function (DUF1403) (family)
This family consists of several hypothetical bacterial proteins of around 320 residues in length. Members of this family are mainly found in Rhizobium and Agrobacterium 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 PF08682: Putative endonuclease, protein of unknown function (DUF1780) (family)
This is a family of uncharacterised proteins.  The structure of a hypothetical protein from Pseudomonas aeruginosa has shown it to adopt an alpha/beta fold, placing it in the Endonuclease superfamily/clan of restriction endonucleases.
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 PF08101: Meiotically up-regulated protein Msb1/Mug8 domain (domain)
This domain of unknown function is found in fungal proteins including Mug8 from Schizosaccharomyces pombe which may have a role in meiosis and septation. Saccharomyces cerevisiae homologue MSB1 (swiss:P21339) may be involved in positive regulation of 1,3-beta-glucan synthesis and the Pkc1p-MAPK pathway.
Pfam PF14736: Protein N-terminal asparagine amidohydrolase (family)
This family of enzymes catalyse the deamindation of N-terminal asparagines in peptides and proteins to aspartic acid.
Pfam PF12768: Rax2 C-terminal beta propeller domain (repeat)
Diploid yeast cells repeatedly polarise and bud from their poles, due probably to the presence of highly stable membrane markers, and Rax2 is one such marker. It is inherited immutably at the cell cortex for multiple generations, and has a half-life exceeding several generations. The persistent inheritance of cortical protein markers would provide a means of coupling a cell's history with the future development of a precise morphogenetic form. Both Rax1 and Rax2 localise to the distal pole as well as to the division site and they interact both with each other and with Bud8p and Bud9p in the establishment and/or maintenance of the cortical markers for bipolar budding. Thus Rax2 is likely to control cell polarity during vegetative growth, and in fission yeast this is done by regulating the localisation of for3p.
Pfam PF03718: Glycosyl hydrolase family 49 (repeat)
Family of dextranase (EC 3.2.1.11) and isopullulanase (EC 3.2.1.57). Dextranase hydrolyses alpha-1,6-glycosidic bonds in dextran polymers. This domain corresponds to the C-terminal pectate lyase like domain.
Wikipedia: In molecular biology, glycoside hydrolase family 49 is a family of glycoside hydrolases.
Pfam PF17831: Pyruvate dehydrogenase E1 component middle domain (domain)
This entry represents one of the thiamin diphosphate-binding domains found in pyruvate dehydrogenase E1 component.
Pfam PF07278: Protein of unknown function (DUF1441) (family)
This family consists of several hypothetical Enterobacterial proteins of around 160 residues in length. The function of this family is unknown. However, it appears to be distantly related to other HTH families so may act as a transcriptional regulator.
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 PF24736: Domain of unknown function (DUF7687) (domain)
This entry represents a domain found in uncharacterised bacterial proteins. It shares detectable similarity to a number of type II restriction endonucleases such as DpnII and Ecl18kI and it is predicted to adopt similar structure. It is likely to possess endonuclease activity given the conservation of putative functional site residues.
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 PF15928: Domain of unknown function (DUF4746) (family)
This presumed domain is functionally uncharacterised. This domain is found in eukaryotes, and is typically between 247 and 324 amino acids in length. The family is found in association with [pfam:PF00085].
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 PF22317: DNA polymerase II small subunit, N-terminal domain (domain)
This domain is found at the N-terminal end of DNA polymerase II small subunit from Pyrococcus horikoshii (PolB) and similar archaeal sequences. PolB possesses two activities: a DNA synthesis (polymerase) and an exonucleolytic activity that degrades single -stranded DNA in the 3' to 5' direction. This domain folds into a four alpha-helix bundle that includes a short parallel beta -sheet.
Pfam PF01387: Synuclein (family)
There are three types of synucleins in humans, these are called alpha, beta and gamma.  Alpha synuclein has been found mutated in families with autosomal dominant Parkinson's disease. A peptide of alpha synuclein has also been found in amyloid plaques in Alzheimer's patients.
Wikipedia: Synucleins are a family of soluble proteins common to vertebrates, primarily expressed in neural tissue and in certain tumors.
Pfam PF24834: Rhabdovirus glycoprotein G PH domain (domain)
This entry includes the glycoprotein G from Rhabdoviruses, such as rabies virus (RABV), Mokola virus (MOKV) and European bat lyssavirus 1 (EBLV), which attaches the virus to host cellular receptor, and induces endocytosis of the virion. It forms the glycoprotein spike is made up of a trimer of G proteins. Each protomer of the trimer is composed of three domains: a membrane-distal pleckstrin homology domain (PH),  a membrane-proximal fusion domain (FD) and a laterally positioned central domain (CD). This entry represents the PH domain (also known as the neck domain.
Pfam PF21766: Dit, C-terminal domain (domain)
This domain is found at the C-terminal end of Distal tail protein from Lactococcus phage p2 (Dit or Gp15) and similar proteins predominantly found in virus. Dit self-associates as two rings organised back to back, with a central channel allowing DNA ejection through the viral tail. This domain is located at the ring periphery and display a galectin fold.
Pfam PF24683: CT021 protein (family)
This entry represents the hypothetical protein CT021 from Chlamydia trachomatis and related proteins. The structure of this protein (PDB:6UXD) consists of beta-meander the folds into an open beta-barrel packed on a side with two alpha-helices. It structurally resembles the N-terminal domain of Sigma-E factor regulatory protein rseB ([pfam:PF03888]).
Pfam PF23638: Domain of unknown function (DUF7145) (domain)
This entry represents a domain of unknown function found in Trichuris sp., Trichinella sp. and similar sequences from nematodes. This domain is repeated in some sequences from Trichuris spp. (two to four times) and it  may adopt a SH2-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 PF03201: H2-forming N5,N10-methylene-tetrahydromethanopterin dehydrogenase (family)
This entry represents the C-terminal domain of H2-forming N5,N10-methylene-tetrahydromethanopterin dehydrogenases. The N(5),N(10)-methylenetetrahydromethanopterin dehydrogenase system of methanogenic archaea is composed of H2-forming methylenetetrahydromethanopterin dehydrogenase (Hmd, represented by this entry) and F420-dependent methylenetetrahydromethanopterin dehydrogenase (IPR002844) . Hmd is an iron-sulphur-cluster-free enzyme that contains an intrinsic CO ligand bound to iron . This domain is found at the C terminus of two distinct subgroups: one has been experimentally characterised as H2-forming N(5),N(10)-methenyltetrahydromethanopterin dehydrogenase (Hmd or HmdI), and the other one contains isozymes that have not been experimentally characterised (HmdII and HmdIII). Because all three isozyme forms are present in each of the corresponding sequenced genomes, it has been suggested that HmdII and HmdIII may not exhibit Hmd activity and may have a different biological function . Based on on its ability to bind to aminoacyl-tRNA synthetases and tRNA, a role for HmdII has been proposed as a regulator of protein synthesis that senses intracellular methylene-H4 MPT concentration .
Wikipedia: The 5,10-methenyltetrahydromethanopterin hydrogenase, the so-called iron-sulfur cluster-free hydrogenase, is an enzyme found in methanogenic archea such as Methanothermobacter marburgensis. It was discovered and first characterized by the Thauer group at the Max Planck Institute in Marburg. Hydrogenases are enzymes that either reduce protons or oxidize molecular dihydrogen.
Pfam PF08268: F-box associated domain (repeat)
This domain occurs in a diverse superfamily of genes in plants. Most examples are found C-terminal to an F-box (IPR001810), a 60 amino acid motif involved in ubiquitination of target proteins to mark them for degradation. Two-hybid experiments support the idea that most members are interchangeable F-box subunits of SCF E3 complexes . Some members have two copies of this domain.
Pfam PF18641: LidA long coiled-coil domain (coiled_coil)
LidA, another Rab1-interacting bacterial effector protein, is translocated by Legionella into the host cytosol at the beginning of infection, and it localized to the Legionella-containing vacuole (LCV) at the cytosolic surface. It has been shown that tight interaction with Rab1 allows LidA to facilitate the Legionella targeting factor (DrrA/SidM)-catalyzed release of Rab1 from GDP dissociation inhibitors (GDI). The base of the protein is formed by two antiparallel coiled-coil structures forming a long coiled-coil domain. This region of LidA interacts with switch and interswitch regions of Rab1 the nucleotide binding pocket of Rab8a, hence blocking access to the GDP/GTP-binding site to a great extent.
Pfam PF03139: Vanadium/alternative nitrogenase delta subunit (family)
The nitrogenase complex [ec:1.18.6.1] catalyses the conversion of molecular nitrogen to ammonia (nitrogen fixation) as follows: 8 reduced ferredoxin + 8 H(+) + N(2) + 16 ATP  8 oxidised ferredoxin + 2 NH(3) + 16 ADP + 16 phosphate. The complex is hexameric, consisting of 2 alpha, 2 beta, and 2 delta subunits. This family represents the delta subunit of a group of nitrogenases that do not utilise molybdenum (Mo) as a cofactor, but instead use either vanadium (V nitrogenases), or iron (alternative nitrogenases). V nitrogenases are encoded by vnf operons, and alternative nitrogenases by anf operons. The delta subunits are VnfG and AnfG, respectively.
Wikipedia: Nitrogenases are enzymes (EC 1.18.6.1EC 1.19.6.1) that are produced by certain bacteria, such as cyanobacteria (blue-green bacteria) and rhizobacteria. These enzymes are responsible for the reduction of nitrogen (N2) to ammonia (NH3). Nitrogenases are the only family of enzymes known to catalyze this reaction, which is a step in the process of nitrogen fixation. Nitrogen fixation is required for all forms of life, with nitrogen being essential for the biosynthesis of molecules (nucleotides, amino acids) that create plants, animals and other organisms. They are encoded by the Nif genes or homologs. They are related to protochlorophyllide reductase.
Pfam PF21389: Cytosolic arginine sensor for mTORC1 subunit 1/2, ACT-like (domain)
This domain is found in Cytosolic arginine sensor for mTORC1 subunit 1 from humans (CASTOR1) and in similar proteins predominantly from vertebrates. CASTOR1 functions as an intracellular arginine sensor within the amino acid-sensing branch of the TORC1 signaling pathway. This entry represents the third out of the four tandem ACT domains  present in this protein. This domain adopts the typical beta-alpha- beta-beta-alpha-beta configuration of the ACT domain, although it lacks the last beta-strand. It folds together with the first ACT domain to form an eight-stranded beta-sheet flanked by four alpha- helices on one side, making up the dimerization domain.
Pfam PF13144: Chaperone for flagella basal body P-ring formation (family)
ChapFlgA is a family similar to the SAF family, and includes chaperones for flagellar basal-body proteins and pilus-assembly proteins, FlgA, RcpB and CpaB. ChapFlgA is necessary for the formation of the P-ring of the flagellum, FlgI, which sits in the peptidoglycan layer of the outer membrane of the bacterium. FlgA plays an auxiliary role in P-ring assembly.
Pfam PF15017: Putative WW-binding domain and destruction box (disordered)
This short conserved region is a putative destruction-box, with its RxxLxxI sequence motif, though the homology is not absolute. The domain occurs on a number of tumourigenic proteins, on some RNA-binding proteins and serine-threonine regulatory proteins. The second less well-conserved motif, WITPS, is a potential WW domain ligand-binding motif for recruiting proteins to their substrates.  WW domains bind tightly to short proline-containing peptides that are typically in regions of native disordered polypeptide, as this family is as it lies between a PIN domain and a zinc-binding domain.
Pfam PF14343: PrcB C-terminal (family)
This domain is found at the C-terminus of Treponema denticola PrcB, [swissprot:B8YNY4]. PrcB interacts with the PrtP protease (dentilisin) and is required for the stability of the protease complex.
Pfam PF08738: Gon7 family (family)
In S. cerevisiae Gon7 is a member of the KEOPS protein complex. A protein complex proposed to be involved in transcription and promoting telomere uncapping and telomere elongation.
Pfam PF11279: Protein of unknown function (DUF3080) (family)
Some members in this family of proteins are annotated as lipoproteins however this cannot be confirmed. Currently this family 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 PF17683: TFIIF, beta subunit N-terminus (family)
Accurate transcription in vivo requires at least six  general transcription initiation factors, in addition to RNA  polymerase II. Transcription initiation factor IIF (TFIIF) is a tetramer of two beta subunits associate with two alpha subunits which interacts directly with RNA polymerase II. The beta subunit  of TFIIF is required for recruitment of RNA polymerase II onto  the promoter.
Pfam PF11000: Protein of unknown function (DUF2840) (family)
This bacterial family of proteins have 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 PF13350: Tyrosine phosphatase family (domain)
This family is closely related to the [pfam:PF00102] and [pfam:PF00782] families.
Wikipedia: Protein tyrosine phosphatases (EC	3.1.3.48, systematic name protein-tyrosine-phosphate phosphohydrolase) are a group of enzymes that remove phosphate groups from phosphorylated tyrosine residues on proteins:[a protein]-tyrosine phosphate + H2O = [a protein]-tyrosine + phosphate
Pfam PF00901: Orbivirus outer capsid protein VP5 (family)
cryoelectron microscopy indicates that VP5 is a trimer implying that there are 360 copies of VP5 per virion.
Pfam PF10467: Peptidase inhibitor clitocypin (family)
Clitocypin binds and inhibits cysteine proteinases.  It has no similarity to any other known cysteine proteinase inhibitors but bears some similarity to a lectin-like family of proteins from mushrooms.
Wikipedia: In biology and biochemistry, protease inhibitors, or antiproteases, are molecules that inhibit the function of proteases. Many naturally occurring protease inhibitors are proteins.
Pfam PF08134: cIII protein family (family)
This family consists of the cIII family of  regulatory proteins. The lambda CIII protein  has 54 amino acids and it forms an amphipathic  helix within its amino acid sequence. Lambda  cIII stabilises the lambda cII protein and the  host sigma factor 32, responsible for transcribing  genes of the heat shock regulon.
Pfam PF19760: Family of unknown function (DUF6247) (family)
This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0000345) is described by MIBiG as an example of the following biosynthetic classes, NRP (non-ribosomal peptide) and polyketide. It includes a member from the eponemycin biosynthetic  gene cluster from Streptomyces hygroscopicus. This family appears to be predominantly found in Actinobacteria.
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 PF09847: Membrane protein of 12 TMs (family)
This family carries twelve transmembrane regions. It does not have any characteristic nucleotide-binding-domains of the GxSGSGKST type. so it may not be an ATP-binding cassette transporter. However, it may well be a transporter of some description.  ABC transporters always have two nucleotide binding domains; this has two unusual conserved sequence-motifs: 'KDhKxhhR' and 'LxxLP'.