SII-SWORD/CoKE huggingface dataset:
Pfam PF06034: Nucleopolyhedrovirus protein of unknown function (DUF919) (family)
This family consists of several short Nucleopolyhedrovirus 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 PF08705: Gag protein p6 (domain)
HIV protein p6 contains two late-budding domains (L domains) which are short sequence motifs essential for viral particle release.  p6 interacts with the endosomal sorting complex and represents a docking site for several cellular and binding factors.  The PTAP motif interacts with the cellular budding factor TSG101.  This domain is also found in some chimpanzee immunodeficiency virus (SIV-cpz) proteins.
Pfam PF02277: Phosphoribosyltransferase (domain)
This family of proteins represent the nicotinate-nucleotide- dimethylbenzimidazole phosphoribosyltransferase (NN:DBI PRT) enzymes involved in dimethylbenzimidazole synthesis. This function is essential to de novo cobalamin (vitamin B12) production in bacteria. Nicotinate mononucleotide (NaMN):5,6-dimethylbenzimidazole (DMB) phosphoribosyltransferase (CobT) from Salmonella enterica plays a central role in the synthesis of alpha-ribazole-5'-phosphate, an intermediate for the lower ligand of cobalamin.
Wikipedia: Erase may refer to:Erase (album), a 1994 death metal album by Gorefest
"Erase/Rewind", a 1998 pop/rock song by The Cardigans
"Erase", a song by All That Remains from the 2002 album Behind Silence and Solitude
"Erase", a song by In Hearts Wake from the 2015 album Skydancer
"Erase", a song by Neurosis and Jarboe from the 2003 album Neurosis &amp; Jarboe
Pfam PF07042: TrfA protein (family)
This family consists of several bacterial TrfA proteins. The trfA operon of broad-host-range IncP plasmids is essential to activate the origin of vegetative replication in diverse species. The trfA operon encodes two ORFs. The first ORF is highly conserved and encodes a putative single-stranded DNA binding protein (Ssb). The second, trfA, contains two translational starts as in the IncP alpha plasmids, generating related polypeptides of 406 (TrfA1) and 282 (TrfA2) amino acids. TrfA2 is very similar to the IncP alpha product, whereas the N-terminal region of TrfA1 shows very little similarity to the equivalent region of IncP alpha TrfA1. This region has been implicated in the ability of IncP alpha plasmids to replicate efficiently in Pseudomonas aeruginosa.
Pfam PF13529: Peptidase_C39 like family (domain)
This entry represents a group of peptidase C39-like proteins.

The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage is mediated by the transporter as part of the secretion process. Bacteriocins are antibiotic proteins secreted by some species of bacteria that inhibit the growth of other bacterial species. The bacteriocin is synthesized as a precursor with an N-terminal leader peptide, and processing involves removal of the leader peptide by cleavage at a Gly-Gly bond, followed by translocation of the mature bacteriocin across the cytoplasmic membrane. Most endopeptidases of family C39 are N-terminal domains in larger proteins (ABC transporters) that serve both functions. The proposed protease active site is conserved in this sub-family of proteins with a single peptidase domain, which are lacking the nucleotide-binding transporter signature or have different domain architectures .
Pfam PF01359: Transposase (partial DDE domain) (family)
This family includes the mariner transposase.
Wikipedia: Tc1/mariner is a class and superfamily of interspersed repeats DNA transposons. The elements of this class are found in all animals, including humans. They can also be found in protists and bacteria.
Pfam PF21726: Family of unknown function (DUF6862) (family)
This entry represents a small domain that is found in a variety of toxin proteins. The precise function of this domain is uncertain. It often follows [pfam:PF04829].
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 PF18125: RlmM ferredoxin-like domain (domain)
This domain is found in Ribosomal methyltransferase RlmM (YdgE) present in E. coli. RlmM catalyzes the S-adenosyl methionine (AdoMet)-dependent 2'O methylation of C2498 in 23S ribosomal RNA. The domain is ferredoxin-like and forms part of the THUMP domain which binds RNA. THUMP domains typically have low sequence similarity.
Pfam PF08593: MUG2-like C-terminal domain (domain)
This entry represents a C-terminal domain found in fungal proteins that are annotated as meiotically up-regulated gene products from fission yeast. The actual function is not yet known. These proteins generally contain a long putative coiled-coil region with this domain found at the C-terminus.
Pfam PF01502: Phosphoribosyl-AMP cyclohydrolase (family)
This enzyme catalyses the third step in the histidine biosynthetic pathway. It requires Zn ions for activity.
Pfam PF19345: Mycobacterial methylenetetrahydrofolate reductase (domain)
This family includes the 5,10-methylenetetrahydrofolate reductase [ec:1.7.99.5] from mycobacteria. The structure for this domain is known to be a TIM barrel. Both MTHFR1 and MTHFR2 found in Mycobacterium smegmatis are involved in de novo methionine biosynthesis and required for antifolate resistance in mycobacteria. Both of these MTHFRs are monomeric and lack flavin coenzymes.
Pfam PF18158: Adaptive response protein AidB N-terminal domain (domain)
This is the N-terminal domain of Adaptive response protein AidB present in E. coli. AidB is upregulated in response to small doses of DNA-methylating agents initiates a response that mitigates the mutagenic and cytotoxic effects of DNA methylation. Tetramer formation is thought to be carried out by the N-terminal domain.
Pfam PF09606: ARC105/Med15 mediator subunit N-terminal KIX domain (domain)
The approx. 70 residue Med15 domain of the ARC-Mediator co-activator is a three-helix bundle with marked similarity to the KIX domain. The sterol regulatory element binding protein (SREBP) family of transcription activators use the ARC105 subunit to activate target genes in the regulation of cholesterol and fatty acid homeostasis. In addition, Med15 is a critical transducer of gene activation signals that control early metazoan development.
Wikipedia: Mediator of RNA polymerase II transcription subunit 15, also known as Gal11, Spt13 in yeast and PCQAP, ARC105, or TIG-1 in humans is a protein encoded by the MED15 gene.
Pfam PF15379: Domain of unknown function (DUF4606) (family)
This domain family is found in eukaryotes, and is approximately 100 amino acids in length.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF00496: Bacterial extracellular solute-binding proteins, family 5 Middle (domain)
The borders of this family are based on the PDBSum definitions of the domain edges for [swissprot:P06202].
Pfam PF01274: Malate synthase, TIM barrel domain (domain)
Malate synthase (MS) catalyses the aldol condensation of glyoxylate with acetyl-CoA to form malate as part of the second step of the glyoxylate bypass and an alternative to the tricarboxylic acid cycle in bacteria, fungi and plants. There have been identified two isoforms, A and G (MSA and MSG, respectively) that differ in size and is attributed to an inserted alpha/beta domain in MSG that may have regulatory function. In malate synthases, the TIM beta/alpha-barrel fold and the C-terminal domain are well conserved and the cleft between them forms the active site. MSA and MSG consist of an N-terminal alpha-helical clasp domain, a central TIM barrel domain and a C-terminal helical plug domain. This is the TIM barrel domain of malate synthases.
Pfam PF13071: Protein of unknown function (DUF3935) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are approximately 90 amino acids in length. There are two conserved sequence motifs: FVF and LGV.
Pfam PF13954: PapC N-terminal domain (domain)
The PapC N-terminal domain is a structural domain found at the N-terminus of the E. coli PapC protein. Pili are assembled using the chaperone usher system. In E.coli this is composed of the chaperone PapD and the usher PapC. This domain represents the N-terminal domain from PapC and its homologues. This domain is involved in substrate binding.
Pfam PF10338: YBL028C ribosome biogenesis factor, N-terminal domain (domain)
This entry represents a domain (previously known as DUF2423) found N-terminal in YBL028C ribosome biogenesis factor and related fungal protein. This domain adopts an alpha-helix and makes extensive contacts with the ribosomal protein uL3 and rRNA.
Pfam PF06248: Centromere/kinetochore Zw10 N-terminal (repeat)
Zw10 protein, in the context of the conserved Rod-Zwilch-Zw10 (RZZ) complex, is required for correct metaphase check-pointing during mitosis and it is also important in vesicle transport between Golgi and ER as part of a second complex together with the conserved conserved RINT1/Tip20p and NAG/Sec39p proteins. Zw10 is the metazoan homologue of yeast Dsl1, and are included in the complexes associated with tethering containing helical rods (CATCHR) family, sharing structural features. This entry represents the N-terminal coiled-coil region of zw10.
Wikipedia: Centromere/kinetochore protein zw10 homolog is a protein that in humans is encoded by the ZW10 gene. This gene encodes a protein that is one of many involved in mechanisms to ensure proper chromosome segregation during cell division. The encoded protein binds to centromeres during the prophase, metaphase, and early anaphase cell division stages and to kinetochore microtubules during metaphase.
Pfam PF19120: Family of unknown function (DUF5804) (family)
Family of unknown function predominantly found in Halobacteria and Methanomicrobia.
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 PF21102: DprA-like N-terminal HHH domain (domain)
This Helix-hairpin-helix domain is found at the N-terminus of predicted Rossmann fold nucleotide-binding protein DprA/Smf involved in DNA uptake.
Pfam PF06941: 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C) (family)
This family consists of several 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C (NT5C) proteins. 5'(3')-Deoxyribonucleotidase is a ubiquitous enzyme in mammalian cells whose physiological function is not known.
Pfam PF16509: TrfB plasmid transcriptional repressor (domain)
KORA is a family of Gram-negative bacterial proteins that act as global repressors of genes involved in plasmid replication, conjugative transfer and stable inheritance in the IncP group of plasmids. KORA operates as a symmetric dimer, and contacts the DNA via the helix-turn-helix region at the N-terminus.
Pfam PF00840: Glycosyl hydrolase family 7 (domain)
O-Glycosyl hydrolases (3.2.1.) are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families . This classification is available on the CAZy (CArbohydrate-Active EnZymes) website.
Glycoside hydrolase family 7 GH7 comprises enzymes with several known activities; endoglucanase (3.2.1.4) and cellobiohydrolase (3.2.1.91). These enzymes were formerly known as cellulase family C.

Exoglucanases and cellobiohydrolases  play a role in the conversion of cellulose to glucose by cutting the dissaccharide cellobiose from the nonreducing end of the cellulose polymer chain. Structurally, cellulases and xylanases generally consist of a catalytic domain joined to a cellulose-binding domain (CBD) via a linker region that is rich in proline and/or hydroxy-amino acids. In type I exoglucanases, the CBD domain is found at the C-terminal extremity of these enzyme (this short domain forms a hairpin loop structure stabilised by 2 disulphide bridges).
Wikipedia: In molecular biology, glycoside hydrolase family 7 is a family of glycoside hydrolases EC 3.2.1., which are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycoside hydrolases, based on sequence similarity, has led to the definition of &gt;100 different families. This classification is available on the CAZy web site, and also discussed at CAZypedia, an online encyclopedia of carbohydrate active enzymes.
Pfam PF02027: RolB/RolC glucosidase family (family)
This family of proteins includes RolB and RolC.  RolC  releases cytokinins from glucoside conjugates. Whereas RolB hydrolyses indole glucosides.
Pfam PF08551: Eukaryotic integral membrane protein (DUF1751) (domain)
This domain is found in eukaryotic integral membrane proteins. [swissprot:Q12239], a Saccharomyces cerervisiae protein, has been shown to localise COP II vesicles.
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 PF19272: Acid sphingomyelin phosphodiesterase C-terminal region (family)
This entry corresponds to the C-terminal region of the phosphodiesterase domain found in acid sphingomyelin phosphodiesterases [1-5. It contains two disulphide bridges.
Pfam PF22454: PQQ synthase PqqF, N-terminal lobe domain 2 (domain)
This entry represents domain 2 from the N-terminal lobe of PQQ synthase PqqF, a protein required for coenzyme pyrroloquinoline quinone (PQQ) biosynthesis. It consists of four structurally similar domains organised in N-terminal (domain 1 represented in Pfam: PF00675 and domain 2) and C-terminal (domain 3 and domain 4) lobes.
Pfam PF21265: Single-stranded DNA-binding protein, Bacteriophage T7 (domain)
Single-stranded DNA-binding proteins (SSB, also known as helix-destabilising proteins and gp2.5) from Bacteriophage T7 is expressed in the late stage of lytic development, binding binding preferentially to single-stranded DNA and is implicated in DNA replication, formation of concatemers, recombination and repair of double-stranded breaks. It physically interacts with T7 DNA polymerase and T7 primase-helicase during replication to coordinate events at the replication fork.
Pfam PF20639: RRN6, K-rich C-terminal domain (domain)
This is the C-terminal K-rich domain from RNA polymerase I-specific transcription initiation factor Rrn6. Rrn6 is a component of a multisubunit transcription factor essential for the initiation of rDNA transcription by Pol I.
Pfam PF23711: Family of unknown function (DUF7156) (family)
This protein family includes a group of uncharacterised short sequences from 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 PF05933: Fungal ATP synthase protein 8 (A6L) (family)
This family consists of fungus specific ATP synthase protein 8 ([ec:3.6.3.14]). The family may be related to the ATP synthase protein 8 found in other eukaryotes [pfam:PF00895].
Wikipedia: MT-ATP8 is a mitochondrial gene with the full name 'mitochondrially encoded ATP synthase membrane subunit 8' that encodes a subunit of mitochondrial ATP synthase, ATP synthase Fo subunit 8. This subunit belongs to the Fo complex of the large, transmembrane F-type ATP synthase. This enzyme, which is also known as complex V, is responsible for the final step of oxidative phosphorylation in the electron transport chain. Specifically, one segment of ATP synthase allows positively charged ions, called protons, to flow across a specialized membrane inside mitochondria. Another segment of the enzyme uses the energy created by this proton flow to convert a molecule called adenosine diphosphate (ADP) to ATP. Subunit 8 differs in sequence between Metazoa, plants and Fungi.
Pfam PF06755: CbtA_toxin of type IV toxin-antitoxin system (family)
CbtA is a family of bacterial and archaeal toxins of type IV toxin-antitoxin system. Toxins from such systems in free-living bacteria inhibit cell growth by targeting essential functions of cellular metabolism. In this case the toxin inhibits cell-division leading to changes in morphology and finally lysis, by interacting with two essential cytoskeletal proteins, FtsZ and MreB. For FtsZ it inhibits its GTPase activity and GTP-dependent polymerisation, and for MreB it inhibits its ATP-dependent polymerisation. These actions of CbtA appear to occur simultaneously. he cognate antitoxin family is represented by [pfam:PF06154].
Wikipedia: A toxin-antitoxin system consists of a "toxin" and a corresponding "antitoxin", usually encoded by closely linked genes. The toxin is usually a protein while the antitoxin can be a protein or an RNA. Toxin-antitoxin systems are widely distributed in prokaryotes, and organisms often have them in multiple copies. When these systems are contained on plasmids – transferable genetic elements – they ensure that only the daughter cells that inherit the plasmid survive after cell division. If the plasmid is absent in a daughter cell, the unstable antitoxin is degraded and the stable toxic protein kills the new cell; this is known as 'post-segregational killing' (PSK).
Pfam PF15434: Family 104 (family)
This family of proteins is found in eukaryotes. Proteins in this family are typically between 113 and 185 amino acids in length. There is a conserved SLQ sequence motif.
Pfam PF18105: PGM1 C-terminal domain (domain)
This is the C-terminal domain found in PGM1 present in Streptomyces cirratus. PGM1 is a gene product that links precursor peptides together to form the antibiotic Pheganomycin.
Pfam PF22827: GldL N-terminal domain (domain)
This entry represents a domain found N-terminal in homologues of Gliding motility protein GldL. GldL has two transmembrane helices (this entry) and a cytoplasmic domain. GldL is a component of the motor complex used by the T9SS and the gliding motility apparatus to transport proteins and gliding adhesin movement at the outer membrane. This motor complex consists of five copies of GldL surrounding two copies of GldM.
Pfam PF05020: NPL4 family, putative zinc binding region (family)
The HRD4 gene was identical to NPL4, a gene previously implicated in nuclear transport. Using a diverse set of substrates and direct ubiquitination assays, analysis revealed that HRD4/NPL4 is required for a poorly characterised step in ER-associated degradation after ubiquitination of target proteins but before their recognition by the 26S proteasome. This region of the protein contains possibly two zinc binding motifs (Bateman A pers. obs.). Npl4p physically associates with Cdc48p via Ufd1p to form a Cdc48p-Ufd1p-Npl4p complex. The Cdc48-Ufd1-Npl4 complex functions in the recognition of several polyubiquitin-tagged proteins and facilitates their presentation to the 26S proteasome for processive degradation or even more specific processing.
Pfam PF03802: Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase (family)
Members of this protein family are annotated as CitX, containing the CitX domain, the domain is also found in the CitXG bifunctional protein, of the citrate lyase system. CitX transfers the prosthetic group 2'-(5''-triphosphoribosyl)-3'-dephospho-CoA to the citrate lyase gamma chain, an acyl carrier protein. This enzyme may be designated holo-ACP synthase, holo-citrate lyase synthase, or apo-citrate lyase phosphoribosyl-dephospho-CoA transferase. In a few genera, including Haemophilus, this protein occurs as a fusion protein with CitG (2.7.8.25), an enzyme involved in prosthetic group biosynthesis. This CitX family is easily separated from the holo-ACP synthases of other enzyme systems.
Pfam PF05342: M26 IgA1-specific Metallo-endopeptidase N-terminal region (family)
These peptidases, which cleave mammalian IgA, are found in Gram-positive bacteria. Often found associated  with [pfam:PF00746], they may be attached to the cell wall.
Pfam PF25155: YvbJ NTF2-like domain (domain)
This domain is found in Uncharacterized membrane protein YvbJ and related proteins. YvbJ contain a pair of NTF2-like domains toward the C terminus. This domain is the first in the pair.
Pfam PF02455: Hexon-associated protein (IIIa) (family)
The major capsid protein of the adenovirus strain is also known as a hexon. This is a family of hexon-associated proteins (protein IIIa).
Pfam PF02368: Bacterial Ig-like domain (group 2) (domain)
This family consists of bacterial domains with an Ig-like fold. Members of this family are found in bacterial and phage surface proteins such as intimins.
Pfam PF07153: Marek's disease-like virus SORF3 protein (family)
This family consists of several SORF3 proteins from the Marek's disease-like viruses. Members of this family are around 350 residues in length. The function of this family is unknown.
Pfam PF20815: GIY-YIG catalytic domain (domain)
This family represents a group of proteins that have a GIY-YIG-like domain related to homing endonucleases.
Pfam PF05766: Bacteriophage Lambda NinG protein (family)
NinG or Rap is involved in recombination. Rap (recombination adept with plasmid) increases lambda-by-plasmid recombination catalysed by Escherichia coli's RecBCD pathway.
Pfam PF12863: Domain of unknown function (DUF3821) (domain)
This is a domain largely confined to sequences from Methanomicrobiales found on putative lipases. The function is not known.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.