SII-SWORD/CoKE huggingface dataset:
Pfam PF11728: Putative aromatic acid exporter C-terminal domain (domain)
This region is a presumed intracellular domain found in a set of bacterial presumed transporter proteins. The region is about 160 amino acids in length.
Pfam PF11223: SPP41, DUF3020 (domain)
This domain is found in the conserved fungal proteins SPP41 (suppressor of PrP4, there are four members, 1 to 4). In S. cerevisiae it is conserved towards the C-terminus of HMG domains. The function is not known. However, it has been shown that SPP41 is involved  in negative regulation of expression of spliceosome components PRP4 and PRP3 and that it relocalizes to the cytosol in response to hypoxia.
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 PF22389: Protein Dicer, dsRNA-binding domain (domain)
This domain is found at the C-terminal end of Protein Dicer from Schizosaccharomyces pombe (Dcr1) and similar fungal sequences. Dcr1 processes double-stranded RNA (dsRNA) precursors endonucleolytically. This domain adopts an extended dsRNA binding domain fold that embeds a zinc-binding motif.
Pfam PF02799: Myristoyl-CoA:protein N-myristoyltransferase, C-terminal domain (domain)
The N and C-terminal domains of NMT are structurally similar, each adopting an acyl-CoA N-acyltransferase-like fold.
Wikipedia: In enzymology, an acetyl-CoA C-myristoyltransferase is an enzyme that catalyzes the chemical reactionmyristoyl-CoA + acetyl-CoA  3-oxopalmitoyl-CoA + CoA
Pfam PF21850: Family of unknown function (DUF6909) (family)
This is a family of uncharacterised proteins. They are predicted to adopt a globular structure consisting of two domains. The predicted C-terminal domain share similarity with the catalytic domains of purine and uridine phosphorylases.
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 PF19802: Domain of unknown function (DUF6285) (domain)
This domain family is found in bacterial proteins and it is functionally uncharacterised. In some members of this family, thought to be aminoglycoside phosphotransferases, it is located 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 PF04762: ELP1 first N-terminal beta-propeller (repeat)
This entry represents the first out of two N-terminal beta-propeller domains, found in Elongator complex protein 1 (ELP1) from eukaryotes. Elongator is a conserved protein complex implicated in multiple processes including regulation of transcription, alpha-tubulin acetylation, and tRNA modification. Mutations in the ELP1 gene have been shown to cause the neurodegenerative disease familial dysautonomia. ELP1 binds members of the Elongator complex ELP2 and ELP3; and the beta-propellers are suggested to act as scaffold for this protein-protein interaction. Also known as IKAP, ELP1 acts as a regulator of IkB kinase complex involved in proinflammatory cytokine signaling. Residues within the central beta propeller have been shown to be required for interaction with upstream regulatory kinase NIK, acting as a scaffold that assembles IKKs with NIK.
Pfam PF04830: Possible hemagglutinin (DUF637) (family)
This family represents a conserved region found in a bacterial protein which may be a hemagglutinin or hemolysin.
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 PF25077: Domain of unknown function (DUF7800) (domain)
This domain is found at the N-terminal end of a group of uncharacterised bacterial proteins that also contain [pfam:PF09423]. This domain is predicted to show an immunoglobulin-like fold.
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 PF19259: Ty3 transposon capsid-like protein (domain)
This entry corresponds to the capsid protein found in the Ty3 transposons of yeast as well as other transposable elements.
Pfam PF21354: Signal transducer and activator of transcription, linker domain (domain)
This domain is found in Signal transducer and activator of transcription proteins (STAT) from animals. These proteins are activated in response to extracellular signals such as cytokines, growth factors and hormonal factors and translocate to the nucleus, where they bind to specific promoter sequences in target genes. This entry represents the all-helical linker domain that connects the DNA binding domain ([pfam:PF02864]) and the SH2 domain ([pfam:PF00017]).
Pfam PF02008: CXXC zinc finger domain (domain)
This domain contains eight conserved cysteine residues that bind to two zinc ions.  The CXXC domain is found in a variety of chromatin-associated proteins. This domain binds to nonmethyl-CpG dinucleotides. The domain is characterised by two repeats, and shows a peculiar internal duplication in which the second unit is inserted into the first one. Each of these units is  characterised by four conserved cysteines, displaying a CXXCXXCX(n)C motif that chelate a Zn+2 ion. The DNA binding interface has been  identified by NMR. In eukaryotes, the CXXC domain is found in stramenopiles, plants and metazoans. Plants possess  a mono-CXXC domain that is present in distinct chromatin proteins. Structural comparisons show that the mono-CXXC is homologous  to the structural-zinc binding domain of medium chain  dehydrogenases.
Pfam PF02218: Repeat in HS1/Cortactin (repeat)
The function of this repeat is unknown. Seven copies are found in cortactin [swissprot:Q14247] and four copies are found in HS1 [swissprot:P14317]. The repeats are always found amino terminal to an SH3 domain [pfam:PF00018].
Pfam PF00924: Mechanosensitive ion channel, beta-domain (domain)
This entry includes small conductance mechanosensitive channels (MscS), which assembles to a homoheptameric complex. Each monomer consists of a N-terminal transmembrane region and a large cytoplasmic segment composed of a five-stranded antiparallel beta-sheet (middle/second) domain and a C-terminal alpha/beta-domain. This is the beta domain which adopts a SH3-like barrel structure.
Wikipedia: Small conductance mechanosensitive ion channels (MscS) provide protection against hypo-osmotic shock in bacteria, responding both to stretching of the cell membrane and to membrane depolarization. In eukaryotes, they fulfill a multitude of important functions in addition to osmoregulation. They are present in the membranes of organisms from the three domains of life: bacteria, archaea, fungi and plants.
Pfam PF09492: Pectic acid lyase (repeat)
Members of this family are isozymes of pectate lyase ([ec:4.2.2.2]), also called polygalacturonic transeliminase and alpha-1,4-D-endopolygalacturonic acid lyase.
Pfam PF11034: Glucose-repressible protein Grg1 (family)
This fungal protein increases during glucose deprivation. Its function is unknown.
Pfam PF07756: Protein of unknown function (DUF1612) (family)
This family includes sequences of largely unknown function but which share a number of features in common. They are expressed by bacterial species,  and in many cases these bacteria are known to  associate symbiotically with plants. Moreover, the majority are coded for by plasmids, which in many cases are known to confer on the organism the ability to interact symbiotically with  leguminous plants. An example of such a plasmid is NGR234, which encodes Y4CF, a protein of unknown function that is a member of this family. Other  members of this family are expressed by organisms with a documented genomic similarity to plant symbionts.
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 PF15616: TerY-C metal binding domain (domain)
TerY-C is found C-terminal to TerY-like vWA domains in some proteins. It has 8 conserved metal chelating cysteines or histidines.  It occasionally occurs as solos.
Pfam PF09574: Protein of unknown function (Duf2374) (family)
This very small protein (about 46 amino acids) consists largely of a single predicted membrane-spanning region. It is found in Photobacterium profundum SS9 and in three species of Vibrio, always near periplasmic nitrate reductase genes, but far from the periplasmic nitrate reductase genes in Aeromonas hydrophila ATCC 7966.
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 PF08947: BPS (Between PH and SH2) (domain)
The BPS (Between PH and SH2) domain, comprised of 2 beta strands and a C-terminal helix, is an approximately 45 residue region found in the adaptor proteins Grb7/10/14 that mediates inhibition of the tyrosine kinase domain of the insulin receptor by binding of the N-terminal portion of the BPS domain to the substrate peptide groove of the kinase, acting as a pseudosubstrate inhibitor.
Wikipedia: In molecular biology, the BPS domain domain is a protein domain of approximately 45 amino acids found in the adaptor proteins Grb7/|Grb10/Grb14. It mediates inhibition of the tyrosine kinase domain of the insulin receptor by binding of the N-terminal portion of the BPS domain to the substrate peptide groove of the kinase, acting as a pseudosubstrate inhibitor. It is composed of two beta strands and a C-terminal helix.
Pfam PF25142: CDCP1 forth CUB domain (domain)
This domain is found in the human CUB domain-containing protein 1 (CDCP1) and related proteins. CDCP1 may be involved in cell adhesion and cell matrix association. It also play a role in the regulation of anchorage versus migration or proliferation versus differentiation via its phosphorylation. CDCP1 contains a tandem of CUB domains. This entry represents the forth of the tandem.
Pfam PF16589: BRCT domain (domain)
This BRCT domain, a BRCA1 C-terminus region, is found on many RAP1 proteins, usually at the very N-terminus. The function in human at least of a BRCT is to contribute to the heterogeneity of the telomere DNA length, but that may not be its general function, which remains unknown.
Wikipedia: BRCA1 C Terminus (BRCT) domain  is a family of evolutionarily related proteins. It is named after the C-terminal domain of BRCA1, a DNA-repair protein that serves as a marker of breast cancer susceptibility.
Pfam PF13201: Putative carbohydrate metabolism domain (domain)
This domain has been suggested to participate in carbohydrate metabolism. Structural evidence indicates that it might be a carbohydrate binding domain, with or without enzymatic activity. In particular, it has been hypothesised that it might act as a glycoside hydrolase.
Pfam PF17460: Uncharacterized protein RP854 (family)
This is a family of unknown function found in Rickettsia. Members of this family are predicted to have one trans-membrane region.
Pfam PF04497: Poxviridae protein (family)
This family of proteins is restricted to Poxviridae.  It contains a number of differently named uncharacterised proteins.
Pfam PF21790: Putative 8-oxoguanine DNA glycosylase OGG-like protein (family)
This family of proteins are structurally similar to 8-oxoguanine DNA glycosylase enzymes. These proteins are involved in DNA repair of the base excision repair pathway.
Pfam PF06551: Protein of unknown function (DUF1120) (family)
This family consists of several hypothetical bacterial proteins of unknown function.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF23443: Family of unknown function (DUF7126) (family)
This family represents a group of proteins from halobacteria. Members are predicted to show an alpha-beta configuration with similarity to the Rossmann fold of the TrkA-N domain ([pfam:PF02254]).
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 PF04189: Gcd10p family (family)
eIF-3 is a multi-subunit complex that stimulates translation initiation in vitro at several different steps. This family corresponds to the gamma subunit if eIF3. The Yeast protein Gcd10p has also been shown to be part of a complex with the methyltransferase Gcd14p that is involved in modifying tRNA.
Pfam PF13353: 4Fe-4S single cluster domain (domain)
This family includes proteins containing domains which bind to iron-sulfur clusters. Members include bacterial ferredoxins, various dehydrogenases, and various reductases. The structure of the domain is an alpha-antiparallel beta sandwich.
Pfam PF20970: MASE10 (domain)
This is the membrane-associated sensor domain 10 (MASE10) which has conserved Cys, Ser and Trp residues in the periplasmic loop, conserved aromatic residues and four charged (Arg, Asp, Lys, and another Asp) residues in the predicted transmembrane segments, suggesting specific interaction with its small molecule or protein ligands. It has been found in c-di-GMP phosphodiesterases, adenylate/guanylate cyclases and  Ser/Thr protein phosphatases of the PP2C family, in which MASE10 is followed by the signal-transducing HAMP domain.
Pfam PF16482: Staufen C-terminal domain (domain)
This is the C-terminal domain of Staufen proteins. It consists of an N-terminal Staufen-swapping motif (SSM) comprising two alpha helices, connected by a linker region to a dsRNA-binding-like domain ('RBD'). The 'RBD' has the fold of a functional dsRNA-binding domain, but lacks the residues required to bind RNA. This domain is responsible for dimerisation, the SSM from one molecule interacts with the 'RBD' of another.
Pfam PF09727: Cortactin-binding protein-2 (family)
This entry is the first approximately 250 residues of cortactin-binding protein 2. In addition to being a positional candidate for autism this protein is expressed at highest levels in the brain in humans.  The human protein has six associated ankyrin repeat domains [pfam:PF00023] towards the C-terminus which act as protein-protein interaction domains.
Pfam PF06789: MINAR1 C-terminal domain (domain)
Major intrinsically disordered Notch2-associated receptor 1 (MINAR1) is a Notch2-binding protein that has been shown to inhibit angiogenesis and breast cancer growth. This entry represents the C terminus of the MINAR1 protein.
Pfam PF02922: Carbohydrate-binding module 48 (Isoamylase N-terminal domain) (domain)
This domain is found in a range of enzymes that act on branched substrates - isoamylase, pullulanase and branching enzyme. This family also contains the beta subunit of 5' AMP activated kinase.
Wikipedia: In molecular biology, a carbohydrate-binding module (CBM) is a protein domain found in carbohydrate-active enzymes. The majority of these domains have carbohydrate-binding activity. Some of these domains are found on cellulosomal scaffoldin proteins. CBMs were previously known as cellulose-binding domains. CBMs are classified into numerous families, based on amino acid sequence similarity. There are currently 64 families of CBM in the CAZy database.
Pfam PF23859: Domain of unknown function (DUF7221) (domain)
This entry represents a set of proteins that are related to the queuine tRNA-ribosyltransferase domain. Queuine tRNA-ribosyltransferase is an enzyme that catalyzes the exchange of guanine at position 34 of tRNAs with queuine. The exact function of this domain is unknown.  It is found in bacteria, archaea, plants and some fungi. In bacteria, it is sometimes found on plasmids.
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 PF00314: Thaumatin family (domain)
Thaumatin  is an intensely sweet-tasting protein, 100 000 times sweeter than sucrose on a molar basis , found in berries from Thaumatococcus daniellii, a tropical flowering plant known as Katemfe. It is induced by attack by viroids, which are single-stranded unencapsulated RNA molecules that do not code for protein.

Thaumatin consists of about 200 residues and contains 8 disulphide bonds. Like other PR proteins, thaumatin is predicted to have a mainly Î² structure, with a high content of Î²-turns and little helix . Several stress-induced proteins of plants have been found to be related to thaumatins:


 * A maize alpha-amylase/trypsin inhibitor
 * Two tobacco pathogenesis-related proteins: PR-R major and minor forms, which are induced after infection with viruses
 * Salt-induced protein NP24 from tomato
 * Osmotin, a salt-induced protein from tobacco 
 * Osmotin-like proteins OSML13, OSML15 and OSML81 from potato 
 * P21, a leaf protein from soybean
 * PWIR2, a leaf protein from wheat 
 * Zeamatin, a maize antifungal protein 


This family is also referred to as pathogenesis-related group 5 (PR5), as many thaumatin-like proteins accumulate in plants in response to infection by a pathogen and possess antifungal activity . The proteins are involved in systemically acquired resistance and stress response in plants, although their precise role is unknown . The PR5K receptor protein kinase from Arabidopsis comprises an extracellular domain related to the PR5 proteins, and an intracellular protein-serine/threonine kinase domain .
Wikipedia: Thaumatin is a low-calorie sweetener and taste modifier. The protein is often used primarily for its flavor-modifying properties and not exclusively as a sweetener.
Pfam PF02921: Ubiquinol cytochrome reductase transmembrane region (family)
Each subunit of the cytochrome bc1 complex provides a single helix (this family) to make up the transmembrane region of the complex.
Wikipedia: The coenzyme Q : cytochrome c – oxidoreductase, sometimes called the cytochrome bc1 complex, and at other times complex III, is the third complex in the electron transport chain, playing a critical role in biochemical generation of ATP. Complex III is a multisubunit transmembrane protein encoded by both the mitochondrial and the nuclear genomes. Complex III is present in the mitochondria of all animals and all aerobic eukaryotes and the inner membranes of most bacteria. Mutations in Complex III cause exercise intolerance as well as multisystem disorders. The bc1 complex contains 11 subunits, 3 respiratory subunits, 2 core proteins and 6 low-molecular weight proteins.
Pfam PF10781: Dextransucrase DSRB (family)
DSRB is a novel dextransucrase which produces a dextran different from the typical dextran, as it contains (1-6) and (1-2) linkages, when this strain is grown in the presence of sucrose.
Pfam PF03474: DMRTA motif (domain)
This region is found to the C-terminus of the [pfam:PF00751]. DM-domain proteins with this motif are known as DMRTA proteins. The function of this region is unknown.
Wikipedia: In molecular biology the DM domain is a protein domain first discovered in the doublesex proteins of Drosophila melanogaster and is also seen in C. elegans and mammalian proteins. In D. melanogaster the doublesex gene controls somatic sexual differentiation by producing alternatively spliced mRNAs encoding related sex-specific polypeptides. These proteins are believed to function as transcription factors on downstream sex-determination genes, especially on neuroblast differentiation and yolk protein genes transcription.
Pfam PF00213: ATP synthase delta (OSCP) subunit (family)
The ATP D subunit from E. coli  is the same as the OSCP subunit which is this family. The ATP D subunit from metazoa are found in family [pfam:PF00401].
Wikipedia: ATP synthase delta subunit  is a subunit of bacterial and chloroplast F-ATPase/synthase. It is known as OSCP in mitochondrial ATPase.
Pfam PF17021: Putative double-strand recombination repair-like (family)
This is a family of microsporidia-specific sequences with homology to the double-strand recombination repair protein family, Mei5 [pfam:PF10376].
Pfam PF07726: ATPase family associated with various cellular activities (AAA) (domain)
This Pfam entry includes some of the AAA proteins not detected by the [pfam:PF00004] model.
Wikipedia: AAA proteins are a large group of protein family sharing a common conserved module of approximately 230 amino acid residues. This is a large, functionally diverse protein family belonging to the AAA+ protein superfamily of ring-shaped P-loop NTPases, which exert their activity through the energy-dependent remodeling or translocation of macromolecules.
Pfam PF12513: Mitochondrial degradasome RNA helicase subunit C terminal (family)
This domain family is found in bacteria and eukaryotes, and is approximately 50 amino acids in length. The family is found in association with [pfam:PF00271]. The yeast mitochondrial degradosome (mtEXO) is an NTP-dependent exoribonuclease involved in mitochondrial RNA metabolism. mtEXO is made up of two subunits: an RNase (DSS1) and an RNA helicase (SUV3). These co-purify with mitochondrial ribosomes.