SII-SWORD/CoKE huggingface dataset:
Pfam PF07381: Winged helix DNA-binding domain (DUF1495) (domain)
This family consists of several hypothetical archaeal proteins of around 110 residues in length. The structure of this domain possesses a winged helix DNA-binding domain suggesting these proteins are bacterial transcription factors.
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 PF08906: T6SS immunity protein Tdi1, C-terminal (domain)
This domain is found at the C-terminal region of the type VI secretion system (T6SS) immunity protein Tdi1 from Agrobacterium tumefaciens (Atu4351, [swissprot:Q7CUQ2]) and similar bacterial proteins Tdi1 is organised into a N-terminal GAD-related domain ([pfam:PF08887]) and a C-terminal domain likely to exist as an insertion in the GAD-like domain. This domain shows a two-stranded antiparallel beta-sheet and four helices. A positive groove that extends to both domains may be associated with nucleotide binding.
Pfam PF01412: Putative GTPase activating protein for Arf (domain)
Putative zinc fingers with GTPase activating proteins (GAPs) towards the small GTPase, Arf. The GAP of ARD1 stimulates GTPase hydrolysis for ARD1 but not ARFs.
Pfam PF14859: Colicin M (family)
Colicin M is a toxin produced by, and active against, Escherichia coli. It catalyses the hydrolysis of lipid I and lipid II peptidoglycan intermediates, therefore inhibiting peptidoglycan biosynthesis and leading to lysis of the bacterial cells.
Pfam PF07646: Kelch motif (repeat)
The kelch motif was initially discovered in Kelch ([swissprot:Q04652]). In this protein there are six copies of the motif.  It has been shown that [swissprot:Q04652] is related to Galactose Oxidase for which a structure has been solved. The kelch motif forms a beta sheet.  Several of these sheets associate to form a beta propeller structure as found in [pfam:PF00064], [pfam:PF00400] and [pfam:PF00415].
Wikipedia: The Kelch motif is a region of protein sequence found widely in proteins from bacteria and eukaryotes. This sequence motif is composed of about 50 amino acid residues which form a structure of a four stranded beta-sheet "blade". This sequence motif is found in between five and eight tandem copies per protein which fold together to form a larger circular solenoid structure called a beta-propeller domain.
Pfam PF01533: Tospovirus nucleocapsid protein (family)
The tospovirus genome consists of three linear ssRNA segments, denoted L, M and S complexed with the nucleocapsid protein. The S RNA encodes the nucleocapsid protein and another non-structural protein.
Pfam PF05401: Nodulation protein S (NodS) (family)
This family consists of nodulation S (NodS) proteins. The products of the rhizobial nodulation genes are involved in the biosynthesis of lipochitin oligosaccharides (LCOs), which are host-specific signal molecules required for nodule formation. NodS is an S-adenosyl-L-methionine (SAM)-dependent methyltransferase involved in N methylation of LCOs. NodS uses N-deacetylated chitooligosaccharides, the products of the NodBC proteins, as its methyl acceptors.
Pfam PF16222: Domain of unknown function (DUF4881) (family)
This small family consists of several uncharacterized proteins around 200 residues in length and is mainly found in various Desulfovibrio species. The function of this protein is unknown.
Pfam PF06750: Bacterial Peptidase A24 N-terminal domain (domain)
This domain is found at the N-terminus of the pre-pilin peptidases ([pfam:PF01478]). Members of this entry have been characterised as bifunctional (), and this domain may contain the N-methylation activity ([ec:2.1.1.-]). It consists of an intracellular region between a pair of transmembrane. This region contains an invariant proline and four almost fully conserved cysteines which bind Zn, as described for PilD from Pseudomonas aeruginosa. The cysteines have been shown to be essential to the overall function of the enzyme.
Pfam PF07367: Fungal fruit body lectin (family)
This family consists of several fungal fruit body lectin proteins. Fruit body lectins are thought to have insecticidal activity and may also function in capturing nematodes.
Wikipedia: In molecular biology, the fungal fruit body lectin family consists of several fungal fruit body lectin proteins. Fruit body lectins are thought to have insecticidal activity and may also function in capturing nematodes. One member of this family, the lectin XCL from Boletus chrysenteron, induces drastic changes in the actin cytoskeleton after sugar binding at the cell surface and internalisation, and has potent insecticidal activity. The fold of lectin XCL is not related to any of several other lectin folds, but shows significant structural similarity to cytolysins.
Pfam PF02621: Menaquinone biosynthesis (domain)
This family includes two enzymes which are involved in menaquinone biosynthesis. One which catalyses the conversion of cyclic de-hypoxanthine futalosine to 1,4-dihydroxy-6-naphthoate, and one which may be involved in the conversion of chorismate to futalosine. These enzymes comprise two domains with alpha/beta structures, a large domain and a small domain. A pocket between the two domains may form the active site, a conserved histidine located within this pocket could be the catalytic base.
Pfam PF21838: Domain of unknown function (DUF6897) (domain)
This entry represents a family of small bacterial and archaeal proteins that have an SH3 like barrel structure that shows most similarity to the C-terminal domain of the ribosomal chaperone RimP [pfam:PF17384].
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 PF21286: Complement factor I, FIMAC N-terminal domain (domain)
Complement factor I (CFAI) is a trypsin-like serine protease that plays an essential role in regulating the immune response by controlling all complement pathways. It cleaves three peptide bonds in the alpha-chain of C3b and two in the alpha-chain of C4b which inactivate these proteins. It consists of an N-terminal FI and membrane attack domain (FIMAC or Factor I-like modules FIM), a scavenger receptor cysteine-rich (SRCR) domain ([pfam:PF00530]), LDLRA1 and LDLRA2 ([pfam:PF00057]) and a C-terminal catalytic serine protease domain ([pfam:PF00089]). FIMs are also present in complement proteins C6 and C7, and participate in protein-protein interactions that critical to the progress of a complement-mediated immune response. In CFAI, the FIMAC domain is important for the ability of FI to degrade C4b and C3b. It consists of a a small N-terminal FOLN subdomain and a larger C-terminal KAZAL domain. This entry represents the N-terminal region of FIMAC, whose structure is a truncated form of the epidermal growth factor (EGF) domain.
Pfam PF18078: Thioredoxin-like SNTX domain (domain)
This domain is found in pore-forming toxin stonustoxin (SNTX), a lethal venom found in Synanceia horrida. Because of the thioredoxin-like nature of the domain, it is referred to as the THX domain. The THX domain is comprised of a five-stranded beta-sheet and shares greatest structural similarity with Saccharomyces cerevisiae mitochondrial THX3. It is thought that THX domain plays a purely structural role.
Pfam PF13246: Cation transport ATPase (P-type) (family)
This domain is found in cation transport ATPases, including phospholipid-transporting ATPases, calcium-transporting ATPases, and sodium-potassium ATPases.
Pfam PF01083: Cutinase (domain)
Plant pathogenic fungi produce extracellular degradative enzymes  that play an important role in pathogenesis. They include cutinase, which hydrolyses cutin, facilitating fungus penetration through the cuticle. Cutinase is a serine esterase containing the classical Ser, His, Asp triad of serine hydrolases. The protein belongs to the Î±-Î² class, with a central Î²-sheet of 5 parallel strands covered by 5 helices on either side of the sheet. The active site cleft is partly covered by 2 thin bridges formed by amino acid side chains, by contrast with the hydrophobic lid possessed by other lipases . The protein also contains 2 disulphide bridges, which are essential for activity, their cleavage resulting in complete loss of enzymatic activity.

In the actinobacteria Kineococcus radiotolerans, this enzyme shows a C-terminal extension that is similar to the substrate binding domain of poly(hydroxybutyrate) (PHB) depolymerases .

Acetylxylan esterase from fungi removes acetyl side groups from xylan. The catalytic core of the enzyme has an Î±/Î²/Î±-sandwich fold, similar to that of cutinase .

This protein family also includes enzymes that do not show cutinase activity but exhibit esterase activity, such as phospholipases and carboxylesterases from Actinobacteria. Phospholipase Culp4 from Mycobacterium tuberculosis hydrolyses dipalmitoylphosphatidylcholine , while Carboxylesterase Culp1 from Mycobacterium tuberculosis hydrolyses various p-nitrophenol-linked aliphatic esters and has weak lipase activity .
Wikipedia: 
The enzyme cutinase is a member of the hydrolase family. It catalyzes the following reaction:
Pfam PF17894: Topo homolgy domain in CRISPR-associated endonuclease Cas9 (domain)
This is the Topo-homology domain found in Cas9 proteins from Actinobacteria. This domain bears structural similarity to a domain found in topoisomerase II.
Pfam PF19870: Family of unknown function (DUF6343) (family)
This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0001558) is described by MIBiG as an example of the following biosynthetic class, polyketide, in particular the cosmomycin C biosynthetic gene cluster from Streptomyces sp. CNT302. 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 PF03286: Pox virus Ag35 surface protein (family)
The Pox virus Ag35 surface protein is an evelope protein known as protein H5 or Late transcription elongation factor OPG110. It is involved in the co-transcriptional or post-transcriptional endoribonucleolytic cleavage that generates sequence-homogeneous 3' ends during late transcription and in postreplicative transcription elongation on intermediate and late genes. It plays a role in DNA replication and in multiple steps of virion morphogenesis  and is required both for inclusion of virosoplasm into crescents as well as for maturation of immature virions (IV) into mature virions (MV) .
Pfam PF01515: Phosphate acetyl/butaryl transferase (family)
This family contains both phosphate acetyltransferase and phosphate butaryltransferase.  These enzymes catalyse the transfer of an acetyl or butaryl group to orthophosphate.
Pfam PF18752: Dictyosteliid AID/APOBEC-like Deaminase (family)
A family of secreted AID/APOBEC-like deaminases found in dictyostellids that often shows lineage-specific expansions.
Pfam PF12980: Domain of Unknown Function with PDB structure (DUF3864) (domain)
Domain based on 366-449 domain of PDB:3LM3 which is encoded by the BDI_3119 gene from Parabacteroides distasonis atcc 8503.
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 PF20741: C-terminal lid domain of glucokinase regulatory protein (domain)
This domain is found at the C terminus of Glucokinase regulatory protein (GKRP) from animals and N-acetylmuramic acid 6-phosphate etherase (MurQ) from bacteria. GKRP binds Glucokinase (GK) mainly through hydrophobic interactions, functioning as an allosteric switch in blood glucose control by the liver. GKRP is trilobal in shape, consisting of two topologically identical sugar isomerase (SIS) domains ([pfam:PF01380] and [pfam:PF13580]) capped by an alpha helical C-terminal domain (this entry). The Lid domain consists of a bundle of seven alpha helices with a core that shows a UBA-like fold. MurQ, which also shows a SIS domain, plays a key role in the peptidoglycane recycling pathway. Its crystal structure shows each monomer have an alpha-beta-alpha sandwich fold commonly found in regulatory proteins controlling the expression of genes involved in the synthesis of phosphosugars. The C-terminal domain of this protein (this entry) is comprised of five alpha helices.
Pfam PF02200: STE like transcription factor (family)
This entry include a group of fungal transcription factors, including Ste12, Cph1, SteA and MST12. In S. cerevisiae, Ste12 mediates transcriptional induction of cell type-specific genes in response to pheromones . Aspergillus nidulans SteA, an homodomain-containing protein, is required for sexual reproduction . MST12 from Magnaporthe oryzae (rice blast fungus) may regulate genes involved in infectious hyphae growth  and in the expression of the cell surface sensor MSB2 .
Pfam PF23737: HTH 3-helical bundle (domain)
This domain is found N-terminal in uncharacterised proteins mainly from Caenorhabditis. It shares significant sequence similarity to the HTH 3-helical bundle domains and it is predicted to adopt similar structure.
Pfam PF19530: NAD(P)H-quinone oxidoreductase subunit 2 N-terminal (domain)
This domain represents the N-terminal of NAD(P)H-quinone oxidoreductase subunit 2 (or subunit B), part of the P-module (pumping) of the photosynthetic complex I from plants and cyanobacteria, which is structurally and functionally related to the respiratory complex I from mitochondria and bacteria. It is involved in the electron transfer between photosynthetic complex I and photosystem I.
Pfam PF08591: Ribonucleotide reductase inhibitor (family)
This family includes S. pombe Spd1. Spd1p inhibits fission yeast RNR activity by interacting with the Cdc22p.
Pfam PF09351: Domain of unknown function (DUF1993) (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 PF06612: Protein of unknown function (DUF1146) (family)
This family consists of several hypothetical bacterial proteins 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 PF24015: Family of unknown function (DUF7329) (family)
This entry represents a family of uncharacterised phage proteins. Proteins in this family are around 250 residues 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 PF13205: Bacterial Ig-like domain (domain)
This Ig-like domain is found in surface-layer (S-layer) protein (SbsA) , among other proteins.
Pfam PF14816: Coiled-coil and Nse Interacting (CANIN) domain (domain)
This domain is found at the C-terminal of the SMC5-SMC6 complex localization factor 2 (SFL2, also known as NSE6 and FAM178A)) which bridges the interaction between SMC6 and SFL1 (NSE5), being responsible for targeting the SMC5/6 complex to double-strand DNA breaks (DSBs) repair sites. It is suggested to be a regulatory element in SMC5/6 complex dynamics by locking its coiled-coiled arms together, thus being named as Coiled-coil And Nse INteracting (CANIN) domain. This domain is essential for the interaction with NSE5. It forms a U-shaped structure that seems to be structurally conserved in eukaryotes.
Pfam PF03448: MgtE intracellular N domain (domain)
This domain is found at the N-terminus of eubacterial magnesium transporters of the MgtE family [pfam:PF01769]. This domain is an intracellular domain that has an alpha-helical structure. The crystal structure of the MgtE transporter shows two of 5 magnesium ions are in the interface between the N domain and the CBS domains. In the absence of magnesium there is a large shift between the N and CBS domains.
Pfam PF13320: Glycoside hydrolase 123, catalytic domain (domain)
This domain is found at the C terminus of protein members of the glycoside hydrolase family 123, including N-acetylgalactosaminidase from Clostridium perfringens. This enzyme removes specific terminal N-D-acetylgalactosamine from glycosphingolipids. This catalytic domain adopts an alpha/beta barrel configuration with a two-stranded beta sheet and a pair of alpha-helices at the C-terminal end.
Pfam PF13408: Recombinase zinc beta ribbon domain (domain)
This short bacterial protein contains a zinc ribbon domain that is likely to be DNA-binding. This domain is found in site specific recombinase proteins. This family appears most closely related to [pfam:PF04606].
Pfam PF04756: OST3 / OST6 family, transporter family (family)
The proteins in this family are part of a complex of eight ER proteins that transfers core oligosaccharide from dolichol carrier to Asn-X-Ser/Thr motifs. This family includes both OST3 and OST6, each of which contains four predicted transmembrane helices.  Disruption of OST3 and OST6 leads to a defect in the assembly of the complex. Hence, the function of these genes seems to be essential for recruiting a fully active complex necessary for efficient N-glycosylation. These proteins are also thought to be novel Mg2+ transporters.
Pfam PF24291: Cilia- and flagella-associated protein 65-like, Ig-like domain (domain)
This domain is found in human Cilia- and flagella-associated protein 65 (CFAP65) and similar animal sequences. CFAP65 plays a role in flagellar formation and sperm motility. This protein is predicted to have several Ig-like domains, one of which is represented by [pfam:PF22544]. This entry represents an Ig-like domain located towards the C-terminal part of the sequence.
Pfam PF06616: BsuBI/PstI restriction endonuclease domain (domain)
This family represents the C-terminus of bacterial enzymes similar to type II restriction endonucleases BsuBI and PstI ([ec:3.1.21.4]). The enzymes of the BsuBI restriction/modification (R/M) system recognise the target sequence 5'CTGCAG and are functionally identical with those of the PstI R/M system.
Wikipedia: In molecular biology, the BsuBI/PstI restriction endonuclease family is a family of type II restriction endonucleases. It includes BsuBI and PstI. The enzymes of the BsuBI restriction/modification (R/M) system recognise the target sequence 5'CTGCAG and are functionally identical with those of the PstI R/M system.
Pfam PF06994: Involucrin (family)
This family represents a conserved region approximately 60 residues long, multiple copies of which are found within eukaryotic involucrin, and which is rich in glutamine and glutamic acid residues. Involucrin forms part of the insoluble cornified cell envelope (a specialised protective barrier) of stratified squamous epithelia. Members of this family seem to be restricted to mammals.
Wikipedia: Involucrin is a protein component of human skin and in humans is encoded by the IVL gene. In binding the protein loricrin, involucrin contributes to the formation of a cell envelope that protects corneocytes in the skin.
Pfam PF15643: Papain fold toxin 2 (family)
A papain fold toxin domain found in bacterial polymorphic toxin systems.
Pfam PF04121: Nuclear pore protein 84 / 107 (family)
Nup84p forms a complex with five proteins, of which Nup120p, Nup85p, Sec13p, and a Sec13p homologues. This Nup84p complex in conjunction with Sec13-type proteins is required for correct nuclear pore biogenesis.
Pfam PF05994: Cytoplasmic Fragile-X interacting family (family)
This entry includes Cytoplasmic FMR1-interacting proteins 1/2 (CYFIP1/2) from humans and their homologues, such as Sra-1 (specifically Rac1-associated protein 1) from Drosophila and PIROGI from Arabidopsis. CYFIP1/2 interact with FMRP (Fragile X messenger ribonucleoprotein 1) which is responsible for pathological manifestations in the Fragile X Syndrome. CYFIP1 interacts with the small GTPase Rac1. CYFIP1 represses cap-dependent translation of mRNA by interacting with the initiation factor eIF4E. CYFIP1 and CYFIP2 are part of the Wiskott-Aldrich syndrome protein-family verprolin-homologous protein (WAVE) complex that regulates actin polymerization at synapses. Drosophila Sra-1 interacts with the Kette and Wasp. It is required for neuronal and bristle development in Drosophila. PIROGI is part of a WAVE complex that activates the ARP2/3 complex and is Involved in regulation of actin organisation.
Pfam PF12693: GspL periplasmic domain (domain)
This domain is the periplasmic domain of the GspL/EpsL family proteins. These proteins are involved in type II secretion systems.
Pfam PF15174: Prion-related protein testis-specific (family)
PRNT is a family of prion-related proteins expressed in the testis.  This family of proteins is found in eukaryotes. Proteins in this family are typically between 52 and 94 amino acids in length.
Wikipedia: The major prion protein (PrP) is encoded in the human body by the PRNP gene also known as CD230. Expression of the protein is most predominant in the nervous system but occurs in many other tissues throughout the body.
Pfam PF21827: New glue protein family (family)
This entry represents new glue proteins which are mucin-like proteins found in drosophila.
Pfam PF12216: Immune evasion protein (family)
This protein is found in archaea and viruses. Proteins in this family are typically between 265 to 342 amino acids in length. The proteins in this family are or are related to the m04 encoded protein gp34 of pathogenic microorganisms such as murine cytomegalovirus. m06 and m152 genes are expressed earlier in the intracellular replication phases of these microorganism' life cycles. They function to inhibit MHC-1 loading and export. gp34 is theorized to prevent immune reactions from NK cells which would ordinarily recognise and attack cells lacking MHC.