SII-SWORD/CoKE huggingface dataset:
Pfam PF20803: PaaX protein central Cas2-like domain (domain)
This entry represents the central domain of the PaaX protein which are transcriptional regulators of protein involved in metabolism of phenylacetic acid. This domain is structurally related to the Cas2 ribonuclease domain, suggesting that these proteins may degrade mRNAs to carry out regulation.
Pfam PF19065: Minor capsid protein P8 central region (domain)
This entry represents the central region of the minor capsid protein P8 found in PBCV-1 and related viruses. The central region of P8 folds into a wedge-shaped structure that consists of three short alpha-helices wrapped around a long alpha-helix. P8 and other minor capsid proteins contribute to the stability of the pentasymmetrons of the viral capsid.
Pfam PF20227: Family of unknown function (DUF6586) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria, mainly in Proteobacteria. Proteins in this family are approximately 150 amino acids in length. There is a conserved motif NQ and a highly conserved Tryptophan residue.
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 PF19918: MoxR-vWA-beta-propeller ternary system domain bpX2 (family)
Uncharacterized domain found in the MoxR-vWA-beta-propeller ternary system, a class of NTP-dependent biological conflict systems.
Pfam PF20495: Family of unknown function (DUF6727) (family)
This is a family of uncharacterised proteins exclusively found in S. japonicus. It contains a highly conserved PLLLP motif at the C-terminal.
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 PF05370: Domain of unknown function (DUF749) (family)
Archaeal domain of unknown function.  This domain has been solved as part of a structural genomics project and comprises of segregated  helical and anti-parallel beta sheet regions.
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 PF11140: Protein of unknown function (DUF2913) (family)
This family of proteins with unknown function appear to be restricted to 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 PF13859: BNR repeat-like domain (repeat)
This family of proteins contains BNR-like repeats suggesting these proteins may act as sialidases.
Wikipedia: Bacterial neuraminidase is type of neuraminidase and a virulence factor for many bacteria including Bacteroides fragilis and Pseudomonas aeruginosa.
Its function is to cleave a sialic acid residue off ganglioside-GM1 turning it into asialo-GM1 to which type 4 pili bind preferentially.
Pfam PF01770: Reduced folate carrier (family)
The reduced folate carrier (a transmembrane glycoprotein) transports reduced folate into mammalian cells via the carrier mediated mechanism (as opposed to the receptor mediated mechanism) it also transports cytotoxic folate analogues used in chemotherapy, such as methotrexate (MTX). Mammalian cells have an absolute requirement for exogenous folates which are needed for growth, and biosynthesis of macromolecules.
Pfam PF04063: Domain of unknown function (DUF383) (family)
This entry represents a domain within Protein HGH1, of unknown function. It is found N-terminal to another domain of unknown function (IPR007206).
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 PF04542: Sigma-70 region 2 (domain)
Region 2 of sigma-70 is the most conserved region of the entire protein.  All members of this class of sigma-factor contain region 2. The high conservation is due to region 2 containing both the -10 promoter recognition helix and the primary core RNA polymerase binding determinant.  The core binding helix, interacts with the  clamp domain of the largest polymerase subunit, beta prime. The aromatic residues of the recognition helix, found at the C-terminus of this domain are though to mediate strand separation, thereby allowing transcription initiation.
Wikipedia: A sigma factor is a protein needed for initiation of transcription in bacteria. It is a bacterial transcription initiation factor that enables specific binding of RNA polymerase (RNAP) to gene promoters. It is homologous to archaeal transcription factor B and to eukaryotic factor TFIIB. The specific sigma factor used to initiate transcription of a given gene will vary, depending on the gene and on the environmental signals needed to initiate transcription of that gene. Selection of promoters by RNA polymerase is dependent on the sigma factor that associates with it. They are also found in plant chloroplasts as a part of the bacteria-like plastid-encoded polymerase (PEP).
Pfam PF09298: Fumarylacetoacetase N-terminal (domain)
The N-terminal domain of fumarylacetoacetate hydrolase is functionally uncharacterised, and adopts a structure consisting of an SH3-like barrel.
Pfam PF22932: DUF569 associated ubiquitin-like domain (domain)
This entry represents a small domain with a ubiquitin like fold that is often associated with [pfam:PF04601]. The function of this domain is not known.
Pfam PF16398: Domain of unknown function (DUF5007) (family)
This small family of proteins is functionally uncharacterised. This family is found in Bacteroides and Sphingobacterium. The members in this family are around 350 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 PF23304: Bardet-Biedl syndrome 1 protein, GAE domain (domain)
Bardet-Biedl syndrome 1 protein (BBS1) is a member of the BBSome complex which is a coat-like ciliary trafficking complex required for sorting of specific membrane proteins to the primary cilia. BBS1 is the most important BBSome subunit for cargo recognition as it mediates the interaction of the GTP-bound Arf-like GTPase ARL6 with the BBSome, a critical step in the recruitment of the BBSome to membranes. This entry represents the GAE domain of BBS1, found at the C-terminal. It adopts a beta-sandwich fold. This domain mediates interactions with other subunits (BBS8 and BBS9) of the complex.
Pfam PF05817: Ribophorin II N-terminal domain (repeat)
This entry represents the N-terminal domain of eukaryotic Ribophorin II (RPN2) proteins. The mammalian oligosaccharyltransferase (OST) is a protein complex that effects the cotranslational N-glycosylation of newly synthesised polypeptides, and is composed of the following proteins: ribophorins I and II (RI and RII), OST48, and Dadl, N33/IAP, OST4, STT3. The family also includes the SWP1 protein from yeast. In yeast the oligosaccharyltransferase complex is composed 7 or 8 subunits, SWP1, being one of them. This domain forms an alpha/alpha6 structure.
Pfam PF17323: Trans-membrane regulatory protein ToxS (family)
Gram negative bacteria such as Vibrio cholera require the production of a number of virulence factors during infection. ToxS, a member of this domain family, is required for ToxR activity. The ToxR and ToxS regulatory proteins are considered to be at the root of the V. cholera virulence regulon, called the ToxR regulon. ToxS serves as a mediator of ToxR function, perhaps by influencing its stability and/or capacity to dimerize, hence ToxS plays an important function in transcriptional activation of Vibrio cholerae virulence genes.
Pfam PF23994: Domain of unknown function (DUF7312) (domain)
This domain is found in uncharacterised archaeal proteins. It is predicted to fold into a single helix.
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 PF16493: TALE/MEIS homeobox family N-terminal domain (domain)
This entry represents an alpha-helical domain found at the N-terminus of members of the TALE/MEIS homeobox family. The TALE/MEIS homeobox family is involved in transcriptional regulation, often through the formation of complexes with HOX or PBX proteins. Members of the family play crucial roles in developmental processes, including patterning of the embryonic cuticle, eye field delimitation, and central nervous system formation. They are also implicated in cell fate determination, hematopoiesis, megakaryocyte lineage development, vascular patterning, and myeloid differentiation. Some family members are known to bind specific DNA motifs, thereby activating transcription of genes such as ELA1, EPHA8, and DRD1. The family's functions extend to the regulation of gene expression in response to signaling pathways, such as Wnt, FGF/MAPK, and retinoid signaling, and they are involved in lipid homeostasis and innate immunity.
Pfam PF11708: Pre-mRNA splicing Prp18-interacting factor (domain)
The spliceosome, an assembly of snRNAs (U1, U2, U4/U6, and U5) and proteins, catalyses the excision of introns from pre-mRNAs in two successive trans-esterification reactions. Step 2 depends upon integral spliceosome constituents such as U5 snRNA and Prp8 and non-spliceosomal proteins Prp16, Slu7, Prp18, and Prp22. ATP hydrolysis by the DEAH-box enzyme Prp16 promotes a conformational change in the spliceosome that leads to protection of the 3'ss from targeted RNase H cleavage. This change, which probably reflects binding of the 3'ss PyAG in the catalytic centre of the spliceosome, requires the ordered recruitment of Slu7, Prp18, and Prp22 to the spliceosome. There is a close functional relationship between Prp8, Prp18, and Slu7, and Prp18 interacts with Slu7, so that together they recruit Prp22 to the spliceosome. Most members of the family carry a zinc-finger of the CCHC-type upstream of this domain.
Pfam PF04900: Fcf1 (family)
Fcf1 is a nucleolar protein involved in pre-rRNA processing. Depletion of yeast Fcf1 and Fcf2 leads to a decrease in synthesis of the 18S rRNA and results in a deficit in 40S ribosomal subunits.
Pfam PF13038: Domain of unknown function (DUF3899) (family)
Putative Tryptophanyl-tRNA synthetase.
Pfam PF03074: Glutamate-cysteine ligase (family)
This family represents the catalytic subunit of glutamate-cysteine ligase (E.C. 6.3.2.2), also known as gamma-glutamylcysteine synthetase (GCS). This enzyme catalyses the rate limiting step in the biosynthesis of glutathione. The eukaryotic enzyme is a dimer of a heavy chain and a light chain with all the catalytic activity exhibited by the heavy chain (this family).
Pfam PF01514: Secretory protein of YscJ/FliF family (family)
This family includes proteins that are related to the YscJ lipoprotein, and the amino terminus of FliF, the flageller M-ring protein.  The members of the YscJ family are thought to be involved in secretion of several proteins. The FliF protein ring is thought to be part of the export apparatus for flageller proteins, based on the similarity to YscJ proteins.
Pfam PF16059: MGA, conserved domain (domain)
This domain can be found in the MAX gene-associated protein (Mga), which is a dual-specificity transcription factor that contains both a bHLHZip domain and a T-box domain and is able to bind to and regulate transcriptional targets through both E-box sites as well as T-box-binding elements (TBEs).
Pfam PF10916: Protein of unknown function (DUF2712) (family)
This family of proteins with unknown function appear to be restricted to Bacillales.
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 PF19990: Family of unknown function (DUF6426) (family)
This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0001396) is described by MIBiG as an example of the following biosynthetic class, polyketide, in particular the  aldgamycin J biosynthetic gene cluster from Streptomyces sp. A1(2016).
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 PF15852: Domain of unknown function (DUF4724) (family)
This family of proteins is found in mammals. There is a conserved KVKPL sequence motif.
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 PF13678: NFkB-p65-degrading zinc protease (family)
This family of bacterial metallo-peptidases is thought to compromise the inflammatory response by degrading p65 thereby down-regulating the NF-kappaB signalling pathway. NF-kappa-B is a pleiotropic transcription factor which is present in almost all cell types and is involved in many biological processes such as inflammation, immunity, differentiation, cell growth, tumorigenesis and apoptosis. NF-kappa-B is a homo- or heterodimeric complex formed by the Rel-like domain-containing proteins RELA/p65, RELB, NFKB1/p105, NFKB1/p50, REL and NFKB2/p52; and the heterodimeric p65-p50 complex appears to be most abundant one.
Pfam PF18110: BRCC36 C-terminal helical domain (domain)
This is the C-terminal domain of BRCC36, a Zn2+ dependent deubiquitinating enzyme, present in Camponotus floridanus. BRCC36 hydrolyzes lysine linked ubiquitin chains as part of macromolecular complexes that participate in either interferon signalling or DNA-damage recognition. The domain consists of 2 non canonical helices. The domain interacts hydrophobically with helices alpha 4 and alpha 5 of KIAA0157 in the form of a coiled coil helical bundle. This interaction helps establish the association of BRCC36 with KIAA0157, a pseudo-DUB MPN- protein that is essential for the activity of BRCC36.
Pfam PF03639: Glycosyl hydrolase family 81 N-terminal domain (domain)
Family of eukaryotic beta-1,3-glucanases. Within the Aspergillus fumigatus protein [swissprot:Q9UVV0] two perfectly conserved Glu residues (E550 or E554) have been proposed as putative nucleophiles of the active site of the Engl1 endoglucanase, while the proton donor would be D475. The endo-beta-1,3-glucanase activity is essential for efficient spore release. This entry represents the N-terminal beta sandwich domain.
Wikipedia: In molecular biology, glycoside hydrolase family 81 is a family of glycoside hydrolases.
Pfam PF07245: Phlebovirus glycoprotein G2 fusion domain (family)
This family consists of several Phlebovirus glycoprotein G2 sequences. Members of the Bunyaviridae family acquire an envelope by budding through the lipid bilayer of the Golgi complex. The budding compartment is thought to be determined by the accumulation of the two heterodimeric membrane glycoproteins G1 and G2 in the Golgi.
Pfam PF02971: Formiminotransferase domain (domain)
The formiminotransferase (FT) domain of formiminotransferase-cyclodeaminase (FTCD) forms a homodimer, with each protomer being comprised of two subdomains. The formiminotransferase domain has an N-terminal subdomain that is made up of a six-stranded mixed Î²-pleated sheet and five Î±-helices, which are arranged on the external surface of the Î²-sheet. This, in turn, faces the Î²-sheet of the C-terminal subdomain to form a double Î²-sheet layer. The two subdomains are separated by a short linker sequence, which is not thought to be any more flexible than the remainder of the molecule. The substrate is predicted to form a number of contacts with residues found in both the N-terminal and C-terminal subdomains . In humans, deficiency of this enzyme results in a disease phenotype .

This entry represents the C-terminal subdomain of the formiminotransferase domain.
Wikipedia: Glutamate formimidoyltransferase is a methyltransferase enzyme which uses tetrahydrofolate as part of histidine catabolism. It catalyses two reactions:5-formimidoyltetrahydrofolate + L-glutamate &lt;=&gt; tetrahydrofolate + N-formimidoyl-L-glutamate
5-formyltetrahydrofolate + L-glutamate &lt;=&gt; tetrahydrofolate + N-formyl-L-glutamate
Pfam PF21226: MalQ N-terminal beta sandwich domain (domain)
Amylomaltase MalQ is essential for the metabolism of maltose and maltodextrins in Escherichia coli. It catalyzes transglycosylation/disproportionation reactions in which glycosyl or dextrinyl units are transferred among linear maltodextrins of various lengths.  This domain called N2 resembles a beta-sandwich consisting of a five-stranded mixed beta-sheet and a short two-stranded antiparallel beta-sheet. The N2 structure is reminiscent of carbohydrate-binding modules (CBMs). However, a comparison with structurally known CBMs did not reveal significant similarities.
Pfam PF11252: Protein of unknown function (DUF3051) (family)
This viral family of proteins has no known function.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF04131: Putative N-acetylmannosamine-6-phosphate epimerase (domain)
This family represents a putative ManNAc-6-P-to-GlcNAc-6P epimerase in the N-acetylmannosamine (ManNAc) utilisation pathway found mainly in pathogenic bacteria.
Pfam PF12505: Protein of unknown function (DUF3712) (family)
This domain family is found in fungi, and is approximately 130 amino acids in length. This domain showed a distant similarity to LEA-2 domains.
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 PF01571: Aminomethyltransferase folate-binding domain (domain)
This is a family of glycine cleavage T-proteins, part of the glycine  cleavage multienzyme complex (GCV) found in bacteria and the mitochondria of eukaryotes. GCV catalyses the catabolism of glycine in eukaryotes. The T-protein is an aminomethyl transferase.
Wikipedia: The glycine cleavage system (GCS) is also known as the glycine decarboxylase complex or GDC. The system is a series of enzymes that are triggered in response to high concentrations of the amino acid glycine. The same set of enzymes is sometimes referred to as glycine synthase when it runs in the reverse direction to form glycine. The glycine cleavage system is composed of four proteins: the T-protein, P-protein, L-protein, and H-protein. They do not form a stable complex, so it is more appropriate to call it a "system" instead of a "complex". The H-protein is responsible for interacting with the three other proteins and acts as a shuttle for some of the intermediate products in glycine decarboxylation. In both animals and plants, the glycine cleavage system is loosely attached to the inner membrane of the mitochondria. Mutations in this enzymatic system are linked with glycine encephalopathy.
Pfam PF09140: ATPase MipZ (domain)
MipZ is an ATPase that forms a complex with the chromosome partitioning protein ParB near the chromosomal origin of replication.  It is responsible for the temporal and spatial regulation of FtsZ ring formation.
Pfam PF18040: beta porphyranase A C-terminal (domain)
This is the C-terminal domain found in Bacteroides plebeius of proteins such as beta-porphyranase A (BPA), a beta-galactanase that cleaves the beta-1,4 glycosidic bond . Porphyranase degrade red seaweed glycans. This domain adopts a beta sandwich shape.
Wikipedia: Beta porphyranase is an enzyme responsible for the degradation of porphyran, which composes the cell wall of red algae. So far only five β-porphyranases have been identified: PorA and PorB are found in the marine bacteria Zobellia galactinovirans. A wild-type porphyranase activity has been found in Pseudoalteromonas atlantica. BpGH16B and BpGH86A have been found in the human gut bacterium, Bacteroides plebeius, of Japanese individuals.
Pfam PF07037: Transcription regulator YfeC-like (family)
This family consists of a group of proteins predominantly found in Enterobacteria, including Uncharacterized protein YfeC from Escherichia coli, a dual transcriptional regulator predicted to form homodimers.