SII-SWORD/CoKE huggingface dataset:
Pfam PF18172: LepB GAP domain N-terminal subdomain (domain)
This is a subdomain of a Rab GTPase-activating protein (GAP) effector from Legionella pneumophilia. This GAP modulates Rab enzymes that act as molecular switches in regulating vesicular transport in eukaryotic cells. This N-terminal subdomain belongs to the the GAP domain of the protein. The catalytic arginine finger (Arg444) is located within this sub-domain and it is the only arginine residue required for GAP activity.
Pfam PF20196: Family of unknown function (DUF6559) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in Gammaproteobacteria. Proteins in this family are approximately 120 amino acids in length. There are two conserved motifs, LxxxYG and Y/FT/SxxQI/V.
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 PF06527: TniQ (family)
This family consists of several bacterial TniQ proteins. TniQ along with TniA and B is involved in the transposition of the mercury-resistance transposon Tn5053 which carries the mer operon. It has been suggested that the tni genes are involved in the dissemination of integrons.
Pfam PF21640: LytM, N-terminal domain (domain)
This domain is found at the N-terminal end of the peptidase from the M23 family LytM found in Ruminococcus gnavus and similar proteins predominantly found in firmicutes. This protein is predicted to have glycyl-glycine endopeptidase activity. This domain shows an all-alpha structure.
Pfam PF13582: Metallo-peptidase family M12B Reprolysin-like (domain)
This zinc-binding metallo-peptidase has the characteristic binding motif HExxGHxxGxxH of Reprolysin-like peptidases of family M12B.
Pfam PF17271: TcfC Usher-like barrel domain (domain)
This is the presumed beta barrel domain from the usher-like TcfC family of proteins.
Pfam PF12859: Anaphase-promoting complex subunit 1 WD40 beta-propeller domain (repeat)
Apc1 is the largest of the subunits of the anaphase-promoting complex or cyclosome. The anaphase-promoting complex is a multiprotein subunit E3 ubiquitin ligase complex that controls segregation of chromosomes and exit from mitosis in eukaryotes. Infection of human fibroblasts with human cytomegalovirus (HCMV) leads to cell cycle dysregulation, which is associated with the inactivation of the anaphase-promoting complex. Apc1 consists of a N-terminal WD40 beta-propeller domain, a middle domain (Mid-N), a PC domain and a C-terminal domain (Mid-C) that coalesces with Mid-N to form Apc1Mid which connects Apc1-WD40 with Apc1-PC and comprises an alpha-solenoid capped by a beta-sandwich. The N-terminal domain is essential for APC/C catalytic activity as it mediates the coactivator-induced conformational change of the APC/C which promotes UbcH10 binding.
Pfam PF02077: SURF4 family (family)
The surfeit locus gene SURF4 (or surf-4) encodes a conserved integral eukaryotic membrane protein of about 270 to 300 amino-acid residues that seems to be located in the endoplasmic reticulum .
Pfam PF15901: Sortilin, neurotensin receptor 3, C-terminal (domain)
Sortilin_C is the C-terminal cytoplasmic tail of sortilin, a Vps10p domain-containing family of proteins. Most sortilin is expressed within intracellular compartments, where it chaperones diverse ligands, including proBDNF and acid hydrolases. The sortilin cytoplasmic tail is homologous to mannose 6-phosphate receptor and is required for the intracellular trafficking of cargo proteins via interactions with distinct adaptor molecules. In addition to mediating lysosomal targeting of specific acid hydrolases, the sortilin cytoplasmic tail also directs trafficking of BDNF to the secretory pathway in neurons, where it can be released in response to depolarisation to modulate cell survival and synaptic plasticity.
Pfam PF22105: Family of unknown function (DUF6943) (family)
This is a family of uncharacterised bacterial proteins. They share significant sequence similarity with each of the specificity subunit target recognition domains of type I restriction-modification enzymes and are predicted to adopt the same structure.
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 PF14974: Protein C10 (family)
The function of this protein family is unknown.  Mutations in protein C (C12orf57) are implicated in  the pathogenesis of colobomatous microphthalmia.
Pfam PF01467: Cytidylyltransferase-like (domain)
This family includes: Cholinephosphate cytidylyltransferase [swissprot:P49585]; glycerol-3-phosphate cytidylyltransferase [swissprot:P27623]. It also includes putative adenylyltransferases, and FAD synthases.
Pfam PF11644: Protein of unknown function (DUF3256) (family)
This family of proteins with unknown function appears to be restricted to Bacteroidales.
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 PF20514: ROXA-like winged helix (domain)
This entry represents the winged helix domain of ribosomal oxygenases, including ROXA from E.coli, which is reminiscent of WH-domains involved in protein-protein and protein-nucleic acid interactions. However, this domain has an overall negative charge suggesting they do not directly bind nucleic acids.
Pfam PF02554: Carbon starvation protein CstA (domain)
This family consists of Carbon starvation protein CstA a predicted membrane protein.  It has been suggested that CstA is involved in peptide utilisation.
Pfam PF23868: Mmc1 C-terminal domain (domain)
This domain is found C-terminal in Mmc1 from Schizosaccharomyces pombe and related proteins. Mmc1 functions in concert with the mitochondrial contact site and cristae organizing system (MICOS) complex to promote normal mitochondrial morphology and respiratory function. This domain is predicted to adopt a globular structure composed mainly of alpha helices. Some of are predicted to be transmembrane and as such it is likely that this domain may associates with membrane. It was proposed that Mmc1 stabilizes cristae architecture by acting as a scaffold to support cristae ultrastructure on the matrix side of the inner membrane.
Pfam PF05962: HutD (family)
HutD from Pseudomonas fluorescens SBW25 is a component of the histidine uptake and utilisation operon. HutD is operonic with the well characterised repressor protein HutC. Genetic analysis using transcriptional fusions (lacZ) and deletion mutants shows that hutD is necessary to maintain fitness in environments replete with histidine. Evidence outlined by Zhang & Rainey (2007) suggests that HutD functions as a governor that sets an upper bound on the level of hut operon transcription. The mechanistic basis is unknown, but in silico molecular docking studies based on the crystal structure of PA5104 (HutD from Pseudomonas aeruginosa) show that urocanate (the first breakdown product of histidine) docks with the active site of HutD.
Pfam PF05830: Nodulation protein Z (NodZ) (family)
The nodulation genes of Rhizobia are regulated by the nodD gene product in response to host-produced flavonoids and appear to encode enzymes involved in the production of a lipo-chitose signal molecule required for infection and nodule formation. NodZ is required for the addition of a 2-O-methylfucose residue to the terminal reducing N-acetylglucosamine of the nodulation signal. This substitution is essential for the biological activity of this molecule. Mutations in nodZ result in defective nodulation. nodZ represents a unique nodulation gene that is not under the control of NodD and yet is essential for the synthesis of an active nodulation signal.
Pfam PF14844: PH domain associated with Beige/BEACH (domain)
This PH domain is found in proteins containing the Beige/BEACH domain ([pfam:PF02138]), it immediately precedes the Beige/BEACH domain.
Pfam PF15905: Hyaluronan mediated motility receptor N-terminal (coiled_coil)
HMMR_N is the N-terminal region of eukaryotic hyaluronan-mediated motility receptor proteins. The protein is functionally associated with BRCA1 and thus predicted to be a common, low-penetrance breast cancer candidate.
Pfam PF04328: Selenoprotein, putative (family)
This entry includes a group of putative selenoproteins from Proteobacteria, Actinobacteria and Firmicutes. The invariant cysteine at the C terminus is encoded by a TGA Sec codon in some Epsilonproteobacteria, suggesting a redox activity for the protein. Some members of this family have been suggested  to be required for pyruvate transport in diverse bacteria, along with a CstA-like transporter found adjacent in the genome (see Supplementary note 5 in.)
Pfam PF14609: Gamma-Tubulin ring complex non-core subunit mod21, N-terminal (domain)
GCP5-Mod21 is a non-core subunit of the larger gamma-tubulin ring complex that effects microtubule nucleation from both centrosomal and non-centrosomal sites. This subunit, unlike GCP2 and and GCP3 and others, is not essential for viability in the fission yeast, and may not be expressed in very high concentrations. Fission yeast can form a large gamma-Tubulin complex C similar to that found in higher eukaryotes and this complex is important for maintaining normal levels of microtubule nucleation in vivo. This entry represents the N-terminal domain of Mod21 from fission yeast, which interacts with Mozart1 (Mzt1) which modules gamma-tubulin ring complex (gamma-TRC) assembly and targeting, allowing gamma-TRC to be to be recruited to different microtubule-organising centres.
Pfam PF01221: Dynein light chain type 1 (domain)
Dynein is a multisubunit microtubule-dependent motor enzyme that acts as the force generating protein of eukaryotic cilia and flagella. The cytoplasmic isoform of dynein acts as a motor for the intracellular retrograde motility of vesicles and organelles along microtubules.

Dynein is composed of a number of ATP-binding large subunits (see IPR004273), intermediate size subunits and small subunits. Among the small subunits, there is a family of highly conserved proteins which make up this family . Proteins in this family act as one of several non-catalytic accessory components of the cytoplasmic dynein 1 complex that are thought to be involved in linking dynein to cargos and to adapter proteins that regulate dynein function and may play a role in changing or maintaining the spatial distribution of cytoskeletal structures. In yeast, it was identified as a component of the nuclear pore complex where it may contribute to the stable association of the Nup82 subcomplex with the nuclear pore complex .

Both type 1 (DLC1) and 2 (DLC2) dynein light chains have a similar two-layer Î±-Î² core structure consisting of Î²-Î±(2)-Î²-X-Î²(2) .
Wikipedia: Dyneins are a family of cytoskeletal motor proteins that move along microtubules in cells. They convert the chemical energy stored in ATP to mechanical work. Dynein transports various cellular cargos, provides forces and displacements important in mitosis, and drives the beat of eukaryotic cilia and flagella. All of these functions rely on dynein's ability to move towards the minus-end of the microtubules, known as retrograde transport; thus, they are called "minus-end directed motors". In contrast, most kinesin motor proteins move toward the microtubules' plus-end, in what is called anterograde transport.
Pfam PF23238: Domain of unknown function (DUF7068) (domain)
This domain is found C-terminal to the NTPase domain [pfam:PF05729] in a group of fungal proteins, including [swissprot:U7Q5X2] from Sporothrix schenckii. It is predicted to adopt an alpha-helical configuration.
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 PF17003: Putative actin-like family (family)
This is a family of microsporidial-specific proteins of unknown function. There is distant homology to the Actin family.
Pfam PF21337: M17 aminopeptidase, N-terminal domain (domain)
This domain is found at the N-terminal end of bacterial M17 aminopeptidases that contain [pfam:PF00883] at its C-terminal end. This domain has several highly conserved W and Y residues.
Pfam PF07441: SigmaK-factor processing regulatory protein BofA (family)
This family contains the sigmaK-factor processing regulatory protein BofA (Bypass-of-forespore protein A) (approximately 80 residues long). During sporulation in Bacillus subtilis, transcription is controlled in the developing sporangium by a cascade of sporulation-specific transcription factors (sigma factors). Following engulfment, processing of sigmaK is inhibited by BofA. It has been suggested that this effect is exerted by alteration of the level of the SpoIVFA protein.
Pfam PF08279: HTH domain (domain)
This family includes helix-turn-helix domains in a wide variety of proteins.
Wikipedia: Helix-turn-helix is a DNA-binding domain (DBD). The helix-turn-helix (HTH) is a major structural motif capable of binding DNA. Each monomer incorporates two α helices, joined by a short strand of amino acids, that bind to the major groove of DNA. The HTH motif occurs in many proteins that regulate gene expression. It should not be confused with the helix–loop–helix motif.
Pfam PF24476: Domain of unknown function (DUF7580) (domain)
This domain is found in a group of uncharacterised eukaryotic proteins. It has a detectable sequence similarity to protein kinase domains and it is predicted to adopt similar structure.
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 PF22434: PilW, C-terminal (domain)
This domain is found at the C-terminal end of the putative pilin protein from Clostridioides difficile (PilW) and similar sequences mainly found in Clostidia, which plays a role in biofilm formation. PilW shows a single transmembrane helix followed by a soluble domain and a central alpha-helix with a beta-sheet packed against it. This long domain is found associated with [pfam:PF07963].
Pfam PF17694: Family of unknown function (DUF5540) (family)
This is a family of unknown function found in primates.
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 PF21662: WipA, alpha-helical hairpin (coiled_coil)
This entry represents the alpha-helical hairpin of WipA protien from Legionella pneumophila which adopts a coiled-coil structure. WipA is one of the effector proteins that is involved in its pathogenicity. This domain interacts with the phosphatase domain of another WipA molecule to form a dimer. It has been suggested that it mediates protein-protein interactions with a tyrosine- phosphorylated host target.
Pfam PF20997: Protein of unknown function (DUF3195) C-terminal domain (domain)
This archaeal family of proteins has no known function. This entry represents the C-terminal THUMP-like 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 PF18764: Nitrous oxide reductase propeller repeat (repeat)
Nitrous oxide reductases usually contain a seven-bladed beta-propeller domain with external short alpha-helices. This entry represents a single blade of the propeller, with imperfect alpha-helix, usually at the C-terminus of the repeat region.
Pfam PF22734: NACHT N-terminal Helical domain 2 (domain)
This is an helical domain found at the N-terminus of bacterial NACHT conflict systems. This position is frequently occupied by an effector domain.
Pfam PF20222: Family of unknown function (DUF6581) (family)
This entry represents a putative domain found in the yeast Transcription factor tau 138 kDa subunit.
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 PF08243: SPT2 chromatin protein (domain)
This family includes the Saccharomyces cerevisiae protein SPT2 which is a chromatin protein involved in transcriptional regulation.
Pfam PF23882: Family of unknown function (DUF7235) (family)
This entry represents an uncharacterized protein found in various phages that infect bacteria. The function of this protein is currently unknown. It is typically around 300-340 amino acids in length.  This protein contains a predicted coiled-coil region near its C-terminus.
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 PF03330: Lytic transglycolase (domain)
Rare lipoprotein A (RlpA) contains a conserved region that has the double-psi beta-barrel (DPBB) fold. The function of RlpA is not well understood, but it has been shown to act as a prc mutant suppressor in Escherichia coli. The DPBB fold is often an enzymatic domain. The members of this family are quite diverse, and if catalytic this family may contain several different functions.  Another example of this domain is found in the N terminus of pollen allergen. Recent studies show that the full-length RlpA protein from Pseudomonas Aeruginosa is an outer membrane protein that is a lytic transglycolase with specificity for peptidoglycan lacking stem peptides. Residue D157 in UniProtKB:Q9X6V6 is critical for lytic activity.
Pfam PF07751: Abi-like protein (family)
This family, found in various bacterial species, contains sequences that are similar to the Abi group of proteins,  which are involved in bacteriophage resistance mediated by  abortive infection in Lactococcus species. The  proteins are thought to have helix-turn-helix motifs, found in many DNA-binding proteins, allowing them to perform their function.
Pfam PF10126: Uncharacterized protein, homolog of nitrogen regulatory protein PII (domain)
This domain, found in various hypothetical archaeal proteins, has no known function. It is distantly similar to the nitrogen regulatory protein PII.
Pfam PF14610: Ykl077w/Psg1 (Pma1 Stabilization in Golgi) (family)
Ykl077w/Psg1 (Pma1 Stabilization in the Golgi) physically interacts with Exp1 (for ER eXport of Pma1). Psg1 can be found in the Golgi and coat protein I (COPI) vesicles but does not directly bind Pma1. Loss of Psg1 causes enhanced degradation of Pma1 in the vacuole. Psg1 is 392aa protein with a predicted signal sequence at its N-terminus and a single TMD near the C-terminus. The short cytosolic region bears 2 putative retrieval motifs KRR and KKxxKxx. It was previously shown to be cleaved by the Ca+ dependent serine protease, Kex2.
Pfam PF09955: Predicted integral membrane protein (DUF2189) (family)
Members of this family are found in various hypothetical prokaryotic proteins, as well as putative cytochrome c oxidases. Their exact function has not, as yet, been established.
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 PF09935: Protein of unknown function (DUF2167) (family)
This domain, found in various hypothetical membrane-anchored prokaryotic 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 PF20255: Family of unknown function (DUF6606) (family)
This entry represents a domain of unknown function found at the N-terminus of a variety of proteins that contain [pfam:PF12340].
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 PF05865: Cypovirus polyhedrin protein (family)
This family consists of several Cypovirus polyhedrin protein. Polyhedrin is known to form a crystalline matrix (polyhedra) in infected insect cells.
Pfam PF12413: Homeobox protein distal-less-like N terminal (family)
This domain family is found in eukaryotes, and is approximately 80 amino acids in length. The family is found in association with [pfam:PF00046]. This family is the N terminal of a homeobox protein involved in embryonic development and adult neural regeneration.
Pfam PF17779: NOD2 winged helix domain (domain)
This winged helix domain is found in the NOD2 protein. Its molecular function is not known.