SII-SWORD/CoKE huggingface dataset:
Pfam PF15469: Exocyst complex component Sec5 (repeat)
This entry represents the Sec5 component of the exocyst complex which is an octomeric complex that mediates the tethering of post-Golgi secretory vesicles to the plasma membrane during exocytosis.
Pfam PF19709: Family of unknown function (DUF6206) (family)
This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0001063) is described by MIBiG as an example of the following biosynthetic classes, polyketide and NRP (non-ribosomal  peptide). It includes a member from the undecylprodigiosin  biosynthetic gene cluster from Streptomyces coelicolor A3(2). This family appears to be predominantly present in bacteria.
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 PF02793: Hormone receptor domain (family)
This extracellular domain contains four conserved cysteines that probably for disulphide bridges.  The domain is found in a variety of hormone receptors. It may be a ligand binding domain.
Pfam PF18368: Exo-beta-D-glucosaminidase Ig-fold domain (domain)
This domain can be found in 2 glycoside hydrolase subfamily of beta-glucosaminidases ([ec:3.2.1.165]) such as CsxA, from Amycolatopsis orientalis that has exo-beta-D-glucosaminidase (exo-chitosanase) activity. It has an immunoglobulin-like topology.
Pfam PF00202: Aminotransferase class-III (domain)
Aminotransferases share certain mechanistic features with other pyridoxalphosphate-dependent enzymes, such as the covalent binding of the pyridoxalphosphate group to a lysine residue. On the basis of sequence similarity, these various enzymes can be grouped into subfamilies . One of these, called class-III, includes:


 * Acetylornithine aminotransferase (2.6.1.11), which catalyses the transfer of an amino group from acetylornithine to alpha-ketoglutarate, yielding N-acetyl-glutamic-5-semi-aldehyde and glutamic acid ;
 * Ornithine aminotransferase (2.6.1.13), which catalyses the transfer of an amino group from ornithine to alpha-ketoglutarate, yielding glutamic-5-semi-aldehyde and glutamic acid ;
 * Omega-amino acid--pyruvate aminotransferase (2.6.1.18), which catalyses transamination between a variety of omega-amino acids, mono-and diamines, and pyruvate ;
 * 4-aminobutyrate aminotransferase (2.6.1.19) (GABA transaminase), which catalyses the transfer of an amino group from GABA to alpha-ketoglutarate, yielding succinate semialdehyde and glutamic acid ;
 * DAPA aminotransferase (2.6.1.62), a bacterial enzyme (bioA), which catalyses an intermediate step in the biosynthesis of biotin, the transamination of 7-keto-8-aminopelargonic acid to form 7,8-diaminopelargonic acid ;
 * 2,2-dialkylglycine decarboxylase (4.1.1.64), a Burkholderia cepacia (Pseudomonas cepacia) enzyme (dgdA) that catalyses the decarboxylating amino transfer of 2,2-dialkylglycine and pyruvate to dialkyl ketone, alanine and carbon dioxide ;
 * Glutamate-1-semialdehyde aminotransferase (5.4.3.8) (GSA) ;
 * Bacillus subtilis aminotransferases yhxA and yodT;
 * Haemophilus influenzae diaminobutyrate--2-oxoglutarate aminotransferase (HI0949) ;
 * Caenorhabditis elegans alanine--glyoxylate aminotransferase 2-like (T01B11.2).
Pfam PF18868: Zinc finger C2H2-type, 3 repeats (domain)
This Pfam entry includes three instances of the Zinc finger C2H2-type. They contain a short beta hairpin and an alpha helix (beta/beta/alpha structure), where a single zinc atom is held in place by Cys(2)His(2) (C2H2) residues in a tetrahedral array.
Pfam PF23780: S-Adenosylmethionine lyase family (family)
The S-Adenosylmethionine lyase family is involved in the regulation of viral genome methylation. It degrades the host cell's intracellular S-adenosylmethionine (SAM) pools and inhibits the host's S-adenosylmethionine synthase, leading to the prevention of viral genome methylation. This activity facilitates the transition of the virus from a lytic to a lysogenic infection under certain stress conditions, such as glucose starvation, by blocking viral expression.  Additionally, the family induces the polymerization of the host's S-adenosylmethionine synthase into inactive filaments, which contributes to the unmethylated state of the viral genome, although it does not confer immunity against host restriction-modification systems. This family shows structural similarity to [pfam:PF12098].
Pfam PF05224: NDT80 / PhoG like DNA-binding family (family)
This family includes the DNA-binding region of NDT80 as well as PhoG and its homologues. The family contains [swissprot:Q05534] or VIB-1. VIB-1 is thought to be a regulator of conidiation in Neurospora crassa and shares a region of similarity to PHOG, a possible phosphate nonrepressible acid phosphatase in Aspergillus nidulans. It has been found that vib-1 is not the structural gene for nonrepressible acid phosphatase, but rather may regulate nonrepressible acid phosphatase activity.
Pfam PF05432: Bone sialoprotein II (BSP-II) (family)
Bone sialoprotein (BSP) is a major structural protein of the bone matrix that is specifically expressed by fully-differentiated osteoblasts. The expression of bone sialoprotein (BSP) is normally restricted to mineralised connective tissues of bones and teeth where it has been associated with mineral crystal formation. However, it has been found that ectopic expression of BSP occurs in various lesions, including oral and extraoral carcinomas, in which it has been associated with the formation of microcrystalline deposits and the metastasis of cancer cells to bone.
Pfam PF02608: ABC transporter substrate-binding protein PnrA-like (family)
Proteins containing this domain were originally  annotated as basic membrane lipoproteins.  However, several proteins containing this domain were  later predicted as ABC transporter substrate-binding proteins, such as PnrA (also known as TmpC or TP0319)  and RfuA (also known as Tpn38 or TP0298) from Treponema pallidum. PnrA transports purine nucleosides, while RfuA transports riboflavin.  Proteins containing this domain also include Med from Bacillus subtilis. Med was annotated as a transcriptional activator protein that regulates comK. This domain can also  found at the N terminus of glutamate receptor-like  proteins from Dictyostelium (slime mold).
Pfam PF21642: SP_0191-like (domain)
This group of proteins predominantly found in firmicutes includes Lipoprotein from Streptococcus pneumoniae (SP_0191), which shows a two-layered alpha-beta structure. Its specific function is unknown.
Pfam PF06399: GTP cyclohydrolase I feedback regulatory protein (GFRP) (domain)
Tetrahydrobiopterin, the cofactor required for hydroxylation  of aromatic amino acids regulates its own synthesis in via feedback inhibition of GTP cyclohydrolase I. This mechanism  is mediated by the regulatory subunit called GTP cyclohydrolase  I feedback regulatory protein (GFRP).
Pfam PF19632: Family of unknown function (DUF6136) (family)
This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0000299) is described by MIBiG as an example of the following biosynthetic class, NRP (non-ribosomal peptide). It  includes a member from the alterochromide A biosynthetic gene  cluster from Pseudoalteromonas piscicida JCM 20779 and appears to be predominantly found in gammaproteobacteria.
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 PF01056: Myc amino-terminal region (family)
The myc family belongs to the basic helix-loop-helix leucine zipper class of transcription factors, see [pfam:PF00010]. Myc forms a heterodimer with Max, and this complex regulates cell growth through direct activation of genes involved in cell replication. Mutations in the C-terminal 20 residues of this domain cause unique changes in the induction of apoptosis, transformation, and G2 arrest.
Pfam PF13601: Winged helix DNA-binding domain (domain)
This entry represents a winged helix DNA-binding domain found in some uncharacterised proteins.
Pfam PF04030: D-arabinono-1,4-lactone oxidase (family)
This domain is specific to D-arabinono-1,4-lactone oxidase [ec:1.1.3.-] , which is involved in the final step of the D-erythroascorbic acid biosynthesis pathway.
Pfam PF02865: STAT protein, protein interaction domain (domain)
STAT proteins (Signal Transducers and Activators of Transcription) are a family of transcription factors that are specifically activated to regulate gene transcription when cells encounter cytokines and growth factors. STAT proteins also include an SH2 domain [pfam:PF00017].
Wikipedia: Members of the signal transducer and activator of transcription (STAT) protein family are intracellular transcription factors that mediate many aspects of cellular immunity, proliferation, apoptosis and differentiation. They are primarily activated by membrane receptor-associated Janus kinases (JAK). Dysregulation of this pathway is frequently observed in primary tumors and leads to increased angiogenesis which enhances the survival of tumors and immunosuppression. Gene knockout studies have provided evidence that STAT proteins are involved in the development and function of the immune system and play a role in maintaining immune tolerance and tumor surveillance.
Pfam PF11255: Protein of unknown function (DUF3054) (family)
Some members in this family of proteins are annotated as membrane proteins however this cannot be confirmed. Currently no function is 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 PF06361: Rice tungro bacilliform virus P12 protein (family)
This family consists of several Rice tungro bacilliform virus P12 proteins. The function of this family is unknown.
Pfam PF21643: T6SS, Immune protein Tsi2-like (family)
This protein family includes Immune protein Tsi2 (also known as Anti-toxin protein Tsi2) from Pseudomonas aeruginosa and similar sequences predominantly found in Proteobacteria. Tsi2 is a immunity protein that plays a role in preventing early activation of toxin Tse2, which is transported via the type VI secretion system (T6SS). It binds to a large surface of Tse2 and thereby occludes the active site to specifically inhibit Tse2. Tsi2 adopts a dimeric configuration. Each monomer consists of two large alpha-helices arranged as an anti-parallel coiled-coil connected by a short turn.
Pfam PF23179: INO2 bHLH domain (domain)
The founding member of this family is the bHLH domain of yeast protein INO2. This protein is a positive regulatory factor involved in the transcriptional regulation of phospholipid biosynthetic genes. INO2 forms a heterodimer with INO4 and this complex specifically recognizes the inositol/choline-responsive element, followed by the transcription activation of the phospholipid biosynthetic gene. Ternary INO2(bHLH)/INO4(bHLH)/DNA complex showed that the recognition and binding of promoter DNA is mediated by the presence of both protein domains.
Pfam PF21045: Integrator subunit 10 (repeat)
Integrator complex subunit 10 is a component of the multiprotein complex Integrator, which is responsible for the endonucleolytic cleavage of small nuclear RNA (snRNA) transcripts within the nucleus. INT10 adopts an armadillo-type fold.
Pfam PF21986: Allophanate hydrolase C-terminal domain (domain)
Allophanate hydrolase (AH) converts allophanate to ammonium and carbon dioxide. The AH structure is composed of N- and C-terminal domains. These domains catalyze sequential reactions: the N-terminal domain converts allophanate to N-carboxycarbamate, whereas the C-terminal domain converts it to carbon dioxide and ammonium. The C-terminal domain folds into alpha/beta structure in which some of the beta-strands form a barrel-like shape.
Pfam PF12145: Eukaryotic Mediator 12 subunit domain (domain)
This domain is found in eukaryotes, and is typically between 325 and 354 amino acids in length. The function of this particular region of the Mediator subunit Med12 is not known, but there is a conserved sequence motif: LCEWAV, from which the name derives.
Wikipedia: Mediator is a multiprotein complex that functions as a transcriptional coactivator in all eukaryotes. It was discovered in 1990 in the lab of Roger D. Kornberg, recipient of the 2006 Nobel Prize in Chemistry. Mediator complexes interact with transcription factors and RNA polymerase II. The main function of mediator complexes is to transmit signals from the transcription factors to the polymerase.
Pfam PF25035: Nesprin-1 domain (domain)
This domain is found in human Nesprin-1 (SYNE1) and similar sequences from vertebrates. SYNE1 is a a multi-isomeric modular protein which forms a linking network between organelles and the actin cytoskeleton to maintain the subcellular spatial organisation. This protein has been associated with several severe disorders. This domain is found towards the C-terminal end of the protein between spectrin repeats ([pfam:PF00435]). Its specific function is unknown.
Pfam PF06705: SF-assemblin/beta giardin (family)
This family consists of several eukaryotic SF-assemblin and related beta giardin proteins. During mitosis the SF-assemblin-based cytoskeleton is reorganised; it divides in prophase and is reduced to two dot-like structures at each spindle pole in metaphase. During anaphase, the two dots present at each pole are connected again. In telophase there is an asymmetrical outgrowth of new fibres. It has been suggested that SF-assemblin is involved in re-establishing the microtubular root system characteristic of interphase cells after mitosis.
Pfam PF01095: Pectinesterase (repeat)
Pectinesterase 3.1.1.11 (pectin methylesterase) catalyses the de-esterification of pectin into pectate and methanol. Pectin is one of the main components of the plant cell wall. In plants, pectinesterase plays an important role in cell wall metabolism during fruit ripening. In plant bacterial pathogens such as Erwinia carotovora and in fungal pathogens such as Aspergillus niger, pectinesterase is involved in maceration and soft-rotting of plant tissue. Plant pectinesterases are regulated by pectinesterase inhibitors, which are ineffective against microbial enzymes .

Prokaryotic and eukaryotic pectinesterases share a few regions of sequence similarity. The crystal structure of pectinesterase from Erwinia chrysanthemi revealed a Î²-helix structure similar to that found in pectinolytic enzymes, though it is different from most structures of esterases . The putative catalytic residues are in a similar location to those of the active site and substrate-binding cleft of pectate lyase.
Wikipedia: Pectinesterase (EC 3.1.1.11; systematic name pectin pectylhydrolase) is a ubiquitous cell-wall-associated enzyme that presents several isoforms that facilitate plant cell wall modification and subsequent breakdown. It catalyzes the following reaction:pectin + n H2O = n methanol + pectate
Pfam PF14893: PNMA (family)
The PNMA family includes paraneoplastic antigens Ma 1, 2 and 3, found in the serum of patients with paraneoplastic neurological disorders. The family also includes modulator of apoptosis 1, which has a role in death receptor-dependent apoptosis.
Pfam PF22226: Mre11 C-terminal Rad50-binding domain (domain)
Communication between Mre11 and Rad50 in the MR complex is critical for the sensing, damage signaling, and repair of DNA double-strand breaks. Mre11 protein consists of an N-terminal core domain and a C-terminal domain linked by an extended connecting loop. The C-terminal domain of Mre11 is composed of three helices and binds to the C-terminal part of the Rad50 coiled-coil.
Pfam PF24010: Family of unknown function (DUF7324) (family)
This entry represents a small putative zinc binding motif found in a small number of uncharacterised phage 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 PF12020: TAFA family (family)
This family of secreted proteins are brain specific and thought to be chemokines.  These proteins are found in vertebrates. Proteins in this family are typically between 94 to 133 amino acids in length and contain a number of conserved cysteines.
Pfam PF23162: C962R protein N-terminal AEP domain (domain)
This AEP domain is found N-terminal in the C962R protein from African swine fever virus and related proteins. C962R protein possesses both DNA polymerization and DNA unwinding activities. This protein adopts a ring-shaped conformation and the N-terminal AEP domain is responsible for the DNA polymerization activity. The C962R AEP domain utilises similar two-cation-assisted mechanism in catalysis as observed in distantly related bacterial and archaeal AEP domains.
Pfam PF03599: CO dehydrogenase/acetyl-CoA synthase delta subunit (family)
This entry represents a conserved region predicted to form a TIM Î±/Î² barrel, and is found in the delta subunit of a number of CO dehydrogenase/acetyl-CoA synthase enzymes.
Pfam PF12883: Protein of unknown function (DUF3828) (domain)
This is a family of 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 PF20201: Family of unknown function (DUF6563) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in Bacteroidetes. Proteins in this family are around 230 amino acids in length. They contain the conserved motifs GGxDY and LYxNC in addition to three Y/F conserved 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 PF24553: Probable histone acetyltransferase Rv0428c C-terminal (domain)
This entry represents the GNAT domain found at the C-terminal of Rv0428c, a probable histone acetyltransferase from Mycobacterium tuberculosis. It may be involved in survival under stress conditions.
Pfam PF05148: Hypothetical methyltransferase (family)
This family consists of several uncharacterised eukaryotic proteins which  are related to methyltransferases [pfam:PF01209].
Pfam PF12805: FUSC-like inner membrane protein yccS (domain)
This family has similarities to the fusaric acid resistance protein family. The proteins are lodged in the inner membrane.
Pfam PF20782: TssR protein VWA domain (domain)
This entry represents the VWA-like domain from the TssR protein. T6SSs are toxin delivery systems. It is a multiprotein complex requiring numerous core proteins (Tss proteins) including cytoplasmic, transmembrane, and outer membrane components.  The needle or tube apparatus is comprised of a phage-like complex, similar to the T4 contractile bacteriophage tail, which is thought to be anchored to the membrane by a trans-envelope complex.
Pfam PF20732: Exo-beta-N-acetylmuramidase NamZ, C-terminal (domain)
NamZ is an exo-beta-N-acetylmuramidase which catalyzes an exo-lytic cleavage of beta-1,4-acetylmuramic acid from from the non-reducing ends of peptidoglycan chains and it is a founding member of a new family of glycosidases (GH171). NamZ consists of a N-terminal catalytic domain with a Rossmann-like fold and a C-terminal auxiliary alpha/beta domain (represented in this entry).
Pfam PF12688: Tetratrico peptide repeat (repeat)
BH0479 of Bacillus halodurans is a hypothetical protein which contains a tetratrico peptide repeat (TPR) structural motif. The TPR motif is often involved in mediating protein-protein interactions.  This protein is likely to function as a dimer. The first 48 amino acids are not present in the clone construct. This Pfam entry includes tetratricopeptide-like repeats not detected by the [pfam:PF00515], [pfam:PF07719], [pfam:PF07720] and [pfam:PF07221] models.
Pfam PF15369: Uncharacterised protein KIAA1328 (family)
This function of this protein family remains uncharacterised. This family of proteins is found in eukaryotes.
Pfam PF09785: Prp31 C terminal domain (family)
This is the C terminal domain of the pre-mRNA processing factor Prp31.  Prp31 is required for U4/U6.U5 tri-snRNP formation. In humans this protein has been linked to autosomal dominant retinitis pigmentosa.
Pfam PF21014: Ca2+-activated K+ channel Slowpoke, TrkA_C like domain (domain)
This domain is found at the cytoplasmic C-terminus of the drosophila slowpoke K+ channel. It is related to the TrkA C-terminal domain [pfam:PF02080].
Pfam PF07240: Stress-inducible humoral factor Turandot (family)
This family consists of several Drosophila species specific Turandot proteins. The Turandot A (TotA) gene encodes a humoral factor, which is secreted from the fat body and accumulates in the body fluids. TotA is strongly induced upon bacterial challenge, as well as by other types of stress such as high temperature, mechanical pressure, dehydration, UV irradiation, and oxidative agents. It is also up-regulated during metamorphosis and at high age. Flies that over-express TotA show prolonged survival and retain normal activity at otherwise lethal temperatures. Although TotA is only induced by severe stress, it responds to a much wider range of stimuli than heat shock genes such as hsp70 or immune genes such as Cecropin A1.
Pfam PF03344: Daxx N-terminal Rassf1C-interacting domain (domain)
The Daxx protein (also known as the Fas-binding protein) is thought to play a role in apoptosis. Daxx forms a complex with Axin. Remodelling of the family to a short domain based on the PDB:2kzs structure gives a more representative family. DAXX is a scaffold protein shown to play diverse roles in transcription and cell cycle regulation. This N-terminal domain folds into a left-handed four-helix bundle (H1, H2, H4, H5) that binds to the N-terminal residues of the tumour-suppressor Rassf1C.
Pfam PF16215: Protein of unknown function (DUF4876) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are typically between 392 and 433 amino acids in length. There is a conserved NNS sequence motif.