SII-SWORD/CoKE huggingface dataset:
Pfam PF03496: ADP-ribosyltransferase exoenzyme (family)
This is a family of bacterial and viral bi-glutamic acid ADP-ribosyltransferases, where, in [swissprot:Q93Q17], E403 is the catalytic residue and E401 contributes to the transfer of ADP-ribose to the target protein. In clostridial species it is actin that is being ADP-ribosylated; this result is lethal and dermonecrotic in infected mammals.
Wikipedia: The AB toxins are two-component protein complexes secreted by a number of pathogenic bacteria, though there is a pore-forming AB toxin found in the eggs of a snail. They can be classified as Type III toxins because they interfere with internal cell function. They are named AB toxins due to their components: the "A" component is usually the "active" portion, and the "B" component is usually the "binding" portion. The "A" subunit possesses enzyme activity, and is transferred to the host cell following a conformational change in the membrane-bound transport "B" subunit. T
Pfam PF19822: Family of unknown function (DUF6304) (family)
This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0000262) is described by MIBiG as an example of the following biosynthetic classes, polyketide and saccharide, in  particular the prejadomycin biosynthetic gene cluster from  Streptomyces sp. PGA64. This family appears to be  predominantly found 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 PF12876: Sugar-binding cellulase-like (domain)
This is a putative cellulase family. The structure is a TIM-barrel.
Pfam PF13517: FG-GAP-like repeat (repeat)
This entry represents a repeat found in alpha integrins and related proteins in which form a 7-fold repeat that adopts a beta-propeller fold. This repeat contains a putative calcium-binding site. These repeats are found in multiple proteins from eukaryotes and bacteria and mediate diverse biological processes at both molecular and cellular levels, such as cell-cell interactions, host-pathogen recognition or innate immune responses.
Pfam PF22548: TOTE conflict system, Archaeo-Eukaryotic Primase domain (domain)
This entry represents the Archaeo-Eukaryotic Primase domain predicted to function as RNA polymerases in the TOTE (TPR, OB, TBP, Effector) conflict systems, potentially generating transcripts for hybrid duplex formation.
Pfam PF00579: tRNA synthetases class I (W and Y) (family)
The aminoacyl-tRNA synthetases (also known as aminoacyl-tRNA ligases) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction . These proteins differ widely in size and oligomeric state, and have limited sequence homology . The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric . Class II aminoacyl-tRNA synthetases share an anti-parallel Î²-sheet fold flanked by Î±-helices , and are mostly dimeric or multimeric, containing at least three conserved regions . However, tRNA binding involves an Î±-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan, valine, and some lysine synthetases (non-eukaryotic group) belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, phenylalanine, proline, serine, threonine, and some lysine synthetases (non-archaeal group), belong to class-II synthetases. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c .
The class Ia aminoacyl-tRNA synthetases consist of the isoleucyl, methionyl, valyl, leucyl, cysteinyl, and arginyl-tRNA synthetases; the class Ib include the glutamyl and glutaminyl-tRNA synthetases, and the class Ic are the tyrosyl and tryptophanyl-tRNA synthetases .
Pfam PF20424: PilZN3 domain (domain)
This is a noncanonical PilZ domain found in spirochaetes, such as B. burgdorferi BB0733 and Treponema denticola TDE0214 proteins. They have a PilZN3-PilZ domain architecture and affect the motility and virulence of these organisms. Secondary structure predictions suggest that this domain retains the C-terminal alpha-helix of PilZ and three additional alpha helices.
Pfam PF22482: PF0864 C-terminal dimeric alpha+beta barrel domain (domain)
This entry describes the C-terminal domain of the uncharacterized HTH-type transcriptional regulator PF0864, identified in the Pyrococcus furiosus archaea. The protein is 162 amino acids long and contains an HTH asnC-type domain (amino acids 6-78) responsible for DNA binding. The crystal structure of PF0864 (PDB: 2IA0) reveals a helix-turn-helix motif within the DNA-binding domain. The function and specific role of PF0864 in transcriptional regulation remain unknown.
Pfam PF09372: PRANC domain (domain)
This presumed domain is found at the C-terminus of a variety of Pox virus proteins. The PRANC (Pox proteins Repeats of ANkyrin - C terminal) domain is also found on its own in some proteins. The function of this domain is unknown, but it appears to be related to the F-box domain and may play a similar role.
Pfam PF20742: Family of unknown function (DUF5580) middle domain (domain)
This is a family of unknown function found in metazoa. This entry represents the central globular domain of the protein related to the calmodulin domain.
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 PF04759: Protein of unknown function, DUF617 (family)
This family represents a conserved region in a number of uncharacterised plant 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 PF01127: Succinate dehydrogenase/Fumarate reductase transmembrane subunit (family)
This family includes a transmembrane protein from both the Succinate dehydrogenase and Fumarate reductase complexes.
Wikipedia: Succinate dehydrogenase (SDH) or succinate-coenzyme Q reductase (SQR) or respiratory complex II is an enzyme complex, found in many bacterial cells and in the inner mitochondrial membrane of eukaryotes. It is the only enzyme that participates in both the citric acid cycle and oxidative phosphorylation. Histochemical analysis showing high succinate dehydrogenase in muscle demonstrates high mitochondrial content and high oxidative potential.
Pfam PF01103: Omp85 superfamily domain (domain)
The Omp85 protein superfamily contains bacterial outer membrane proteins, which can function as protein translocases or as membrane protein assembly factors. The family includes the membrane bound beta barrel of proteins such as BamA and TamA from E. coli.
Wikipedia: BamA is a β-barrel, outer membrane protein found in Gram-negative bacteria and it is the main and vital component of the β-barrel assembly machinery (BAM) complex in those bacteria. BAM Complex consists of five components; BamB, BamC, BamD, BamE and BamA. This complex is responsible in catalyzing folding and insertion of β-barrel proteins into the outer membrane of Gram-negative bacteria.
Pfam PF01717: Cobalamin-independent synthase, Catalytic domain (domain)
This is a family of vitamin-B12 independent methionine synthases or 5-methyltetrahydropteroyltriglutamate--homocysteine methyltransferases, [ec:2.1.1.14] from bacteria and plants. Plants are the only higher eukaryotes that have the required enzymes for methionine synthesis. This enzyme catalyses the last step in the production of methionine by transferring a methyl group from 5-methyltetrahydrofolate to homocysteine. The aligned region makes up the carboxy region of the approximately 750 amino acid protein except in some hypothetical archaeal proteins present in the family, where this region corresponds to the entire length. This domain contains the catalytic residues of the enzyme.
Pfam PF07820: TraC-like protein (family)
The members of this family are sequences that are similar to TraC ([swissprot:Q84HT8]). The gene encoding this protein is one of a group of genes found on plasmid p42a of Rhizobium etli CFN42 that are thought to be involved in the process of plasmid self-transmission. Mobilisation of plasmid p42a is of importance as it is required for transfer of plasmid p42a, which is also known as plasmid pSym as it carries most of the genes required for nodulation and nitrogen fixation by the symbiotic bacterium. The predicted protein products of p42a are similar to known transfer proteins of Agrobacterium tumefaciens plasmid pTiC58.
Pfam PF03456: uDENN domain (domain)
This region is always found associated with [pfam:PF02141]. It is predicted to form an all beta domain.
Pfam PF21712: Ras association domain-containing protein 8/10, RA domain (domain)
This entry represents the Ras-associating domain from Ras association domain-containing protein 8/10 (RASSF8/10) which belong to the N-terminal RASSF7-10 protein family. They have an RA-domain at the N-terminal and lacks a conserved SARAH (Salvador/RASSF/Hpo) motif adjacent to the RA domain that is found in members of the RASSF1-6 family. This domain has a beta-grasp ubiquitin-like fold with low sequence similarity to ubiquitin. RASSF8 has been described as a potential tumour suppressor and it may have a role in the regulation of cell-cell adhesion and cell growth. RASSF10 functions as a tumour suppressor.
Pfam PF16153: Domain of unknown function (DUF4861) (family)
This family consists of uncharacterized proteins around 400 residues in length and is mainly found in various Bacteroides species. The function of this family is unknown. However, in many instances the domain lies upstream of a glycosyl hydrolase family, usually family 88, so it might be involved in carbohydrate binding.
Pfam PF16048: Frog antimicrobial peptide (family)
This family includes antimicrobial peptides such as Ranacyclin which are secreted from frog skin.
Pfam PF03353: Ras-mediated vulval-induction antagonist (family)
LIN-8 is a nuclear protein, present at the sites of transcriptional repressor complexes, which interacts with LIN-35 Rb. Lin35 Rb is a product of the class B synMuv gene lin-35 which silences genes required for vulval specification through chromatin modification and remodelling. The biological role of the interaction has not yet been determined however predictions have been made. The interaction shows that class A synMuv genes control vulval induction through the transcriptional regulation of gene expression. LIN-8 normally functions as part of a protein complex however when the complex is absent, other family members can partially replace LIN-8 activity.
Pfam PF05280: Flagellar transcriptional activator (FlhC) (family)
This family consists of several bacterial flagellar transcriptional activator (FlhC) proteins. FlhC combines with FlhD to form a regulatory complex in E. coli, this complex has been shown to be a global regulator  involved in many cellular processes as well as a flagellar transcriptional activator.
Pfam PF22895: Domain of unknown function (DUF7024) (domain)
This domain has a structure that resembles the galactose-binding domain. This domain is often associated with a [pfam:PF00884] sulfatase like domain. Suggesting that this domain may be part of an enzyme that modifies some kind of carbohydrate.
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 PF08549: SWI/SNF and RSC complexes subunit Ssr4 N-terminal (domain)
This entry represents the N-terminal domain of SWI/SNF and RSC complexes subunit Ssr4 from S. pombe, a essential member of the chromatin structure remodelling complex (RSC) and the SWI/SNF complex. The structure of this domain revealed that it has a novel fold comprising an antiparallel beta-sheet of seven strands with alpha-helices on one side and random coil on the other. It contains the highly conserved motif WxxxxxPxxGxxxxxxxxxxxxxxxDG. RSC is involved in transcription regulation and nucleosome positioning which controls, particularly, membrane and organelle development genes. The ATP-dependent chromatin remodelling complex SWI/SNF is required for the positive and negative regulation of gene expression of a large number of genes through the regulation of nucleosome remodelling.
Pfam PF09655: Conserved nitrate reductase-associated protein (Nitr_red_assoc) (family)
Proteins in this entry are found in the Cyanobacteria, and are mostly encoded near nitrate reductase and molybdopterin biosynthesis genes. Molybdopterin guanine dinucleotide is a cofactor for nitrate reductase. These proteins are sometimes annotated as nitrate reductase-associated proteins, though their function is unknown.
Pfam PF01287: Eukaryotic elongation factor 5A hypusine, DNA-binding OB fold (domain)
eIF5A, previously thought to be an initiation factor, has been shown to be required for peptide chain elongation in yeast.
Pfam PF02474: Nodulation protein A (NodA) (family)
Rhizobia nodulation (nod) genes control the biosynthesis of Nod factors required for infection and nodulation of their legume hosts. Nodulation  protein A (NodA) is a N-acetyltransferase involved in production of Nod factors that stimulate mitosis in various plant protoplasts.
Pfam PF17507: Family of unknown function (DUF5439) (family)
This is a family of unknown function found in Orthopoxvirus.
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 PF22559: Phage GNAT-like domain (domain)
This domain has been characterised as part of a nucleic acid modifying system in certain phages. This system may modify tRNAs that are encoded adjacent to the system on the genome. These tRNAs are then possibly packaged into the viral head, to render them resistant to host restriction.
Pfam PF08613: Cyclin (family)
This family includes many different cyclin proteins.  Members include the G1/S-specific cyclin pas1, and the phosphate system cyclin PHO80/PHO85.
Pfam PF24448: y05I-like putative transcription factor C-terminal domain (domain)
This entry represents the C-terminal domain of family of uncharacterised phage protein that includes T4 y05I protein [swissprot:P39240]. The family also includes homologues from T2 and T6 phage among others. These proteins contain two domains. These domains appear to be related to those found in the eukaryotic PurA transcription factor. This N-terminal presumably single stranded DNA binding domain contains two copies of a PurA-like repeat. The C-terminal domain contains a single copy that may mediate dimerisation in an analogous fashion to PurA.
Pfam PF14139: YpzG-like protein (family)
The YpzG-like protein family includes the B. subtilis YpzG protein [swissprot:C0H444] which is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are approximately 50 amino acids in length. There is a conserved QVNG sequence motif.
Pfam PF06999: Sucrase/ferredoxin-like (family)
This family contains a number of bacterial and eukaryotic proteins approximately 400 residues long that resemble ferredoxin and appear to have sucrolytic activity.
Pfam PF02332: Methane/Phenol/Alkene Hydroxylase (domain)
This protein family includes several components of multicomponent enzyme systems predominantly found in Proteobacteria and Actinobacteria, including subunits alpha and beta of a methane monooxygenase and an alkene monooxygenase system, small and large subunits of propane 2-monooxygenase system and P1 protein of phenol hydroxylase.
Pfam PF08223: PaaX-like protein C-terminal domain (family)
This family contains proteins that are similar to the product of the paaX gene of Escherichia coli ([swissprot:P76086]). This protein  is involved in the regulation of expression of a group of proteins  known to participate in the metabolism of phenylacetic acid.
Pfam PF24495: Transmembrane protein 131 second Ig-like domain (domain)
This entry represents the second Ig-like domain from TMEM131, a collagen binding transmembrane protein involved in collagen secretion by recruiting the ER-to-Golgi transport complex TRAPPIII.
Pfam PF15179: Myc target protein 1 (family)
This family of proteins is regulated by the c-Myc oncoprotein. It regulates the expression of several other c-Myc target genes.
Pfam PF10631: Protein of unknown function (DUF2477) (family)
This is a family of proteins with no known function. The family is rich in proline 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 PF00336: DNA polymerase (viral) C-terminal domain (family)
This domain is at the C terminus of hepatitis B-type viruses P proteins and represents a functional domain that controls the RNase H activities of the protein. The domain is always associated with IPR000201 and IPR000477.
Pfam PF09335: VTT domain (domain)
This is the VTT (VMP1, TMEM41, and TVP38) domain found in sequences from all cellular organisms, including Golgi apparatus membrane protein TVP38 from Saccharomyces cerevisiae, which is involved in vesicular trafficking and spindle migration. This domain was previously called SNARE-associated domain but was renamed as there is no evidence that it associates with SNARE proteins.
Pfam PF16605: LSM-interacting associated unstructured (disordered)
LSM_int_assoc is a family found largely on eukaryotic SART3 proteins just upstream of their C-terminal LSM-interacting domain. This region is natively unstructured.
Pfam PF10520: Lipid desaturase domain (domain)
This entry represents a family of lipid desaturase domains. The TMEM189 protein is a plasmanylethanolamine desaturase enzyme. The domain is also found on fatty acid saturase FAD4 in Arabidopsis.
Pfam PF03231: Tospovirus non-structural protein NS-S-like, N-terminal (domain)
This entry represents the N-terminal domain of Nonstructural protein NS-S from Tospovirus and related sequences from related Bunyaviruses. Bunyavirus has three genomic segments: small (S), middle-sized (M), and large (L). The S segment encodes the nucleocapsid and a non-structural protein. The M segment codes for two glycoproteins, G1 and G2, and another non-structural protein (NSm). The L segment codes for an RNA polymerase.
Pfam PF18161: ISP1 C-terminal (domain)
This is the C-terminal domain of ISP1 protein, which plays a role in asexual daughter cell formation, such as in Toxi. gondii. The domain consists of a seven-stranded antiparallel beta-sandwich bordered on one end by an inter-strand loop (open end) and capped at the other end by an amphipathic C-terminal helix (closed end). The domain adopts a pleckstrin homology (PH) fold, despite having negligible sequence similarity. PH domains are often found in proteins that support protein-lipid and play a role in mediating membrane localization through IP binding. However, the Phospholipid Binding Properties of PH domains is not conserved in the TgISP1. Unlike PH domains, ISP1 is cysteine rich. The cysteine-rich nature of the ISPs and the number of surface-exposed cysteines may result in redox instability and may also facilitate higher order multimerization. A disulfide bond between beta 2 and beta 3 is likely a structural feature of the ISP1, as both cysteines appear broadly conserved.
Wikipedia: Pleckstrin homology domain or (PHIP) is a protein domain of approximately 120 amino acids that occurs in a wide range of proteins involved in intracellular signaling or as constituents of the cytoskeleton.
Pfam PF13808: DDE_Tnp_1-associated (domain)
This domain is frequently found N-terminal to the transposase, IS family DDE_Tnp_1, [pfam:PF01609] and its relatives.
Pfam PF16520: ssRNA-binding matrix protein of Bornaviridae (domain)
BDV_M is a family of matrix proteins from negative-strand Bornaviridae viruses. Its most stable oligomeric form is a tetramer, and it lies beneath the viral envelope where it associates with the inner layer of the viral membrane. It bridges the gap between the nucleocapsid and the viral envelope thereby imparting structural integrity and individual form to the virus particle. Borna disease virus (BDV) is a neurotropic enveloped RNA virus causing a noncytolytic, persistent infection of the central nervous system in mammals. The order to which this virus belongs, Mononegavirales, also contains the Ebola, mumps, rabies and measles viruses, amongst other highly infectious agents.
Pfam PF10340: Steryl acetyl hydrolase (family)
This entry includes budding yeast steryl acetyl  hydrolase 1 (Say1) and fission yeast Mug180. Say1 is a a membrane-anchored deacetylase  required for the deacetylation of acetylated sterols.   It is involved in the resistance to eugenol and pregnenolone toxicity. Mug180 has a role in  meiosis.
Pfam PF11634: Nuclease inhibitor from bacteriophage T4 (family)
This family of proteins represents IPI from bacteriophage T4. This protein is a nuclease inhibitor which is injected by T4 to protect its DNA from gmrS/gmrD CT of pathogenic Escherichia coli into the infected host. The structure of this protein consists of two small beta-sheets flanked by N and C termini by alpha-helices. The protein has a gmrS/gmrD hydrophobic binding site.
Pfam PF15920: N-terminal of Junction-mediating and WASP homolog-associated (family)
WHAMM-JMY_N is the very N-terminus of WHAMM and JMY proteins. The function of this conserved region is not known; there are two highly conserved tryptophan residues.
Pfam PF08708: Primase C terminal 1 (PriCT-1) (domain)
This alpha helical domain is found at the C terminal of primases.
Pfam PF21276: Zinc finger protein 512, C2HC zinc finger (domain)
This C2HC zinc finger is found in human ZNF512 protein and other related proteins primarily from chordates. The human ZNF512 contains six zinc fingers, of which three are classical type C2H2 zinc fingers and three are variant C2HC. The function of these domains is unknown.