SII-SWORD/CoKE huggingface dataset:
Pfam PF21532: Bridging integrator 2, C-terminal tail (domain)
Bridging integrator 2 (Bin2) is a BAR domain-containing protein that is mainly expressed in haematopoietic cells. It promotes cell motility and migration, probably via its interaction with the cell membrane and with podosome proteins that mediate interaction with the cytoskeleton. Bin2 modulates membrane curvature, mediates membrane tubulation and it plays a role in podosome formation. This entry represents the C-terminal tail which mediates interactions with SH3 domains, through its proline-rich regions functioning as an adaptor for SH3 domain-containing proteins at podosomes. This domain is rich in glutamates, serines and prolines. It contains two consensus PxxP sequences (PTSPR and PEKPVR).
Pfam PF24462: F54D1.6, Ig-like domain (domain)
This is an immunoglobulin-like domain of the uncharacterised protein F54D1.6 from Caenorhabditis elegans and similar animal sequences. It is often found associated to [pfam:PF06119].
Pfam PF16750: Sensor domain of 2-component histidine kinase (domain)
HK_sensor is the sensor domain found at the N-terminus of the integral membrane two-component system sensor histidine kinase proteins in bacteria.
Pfam PF14427: Pput_2613-like deaminase (family)
A member of the nucleic acid/nucleotide deaminase superfamily prototyped by Pseudomonas Pput_2613. Members of this family are predicted to function as toxins in bacterial polymorphic toxin  systems.
Pfam PF13143: Protein of unknown function (DUF3986) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are approximately 100 amino acids in length.
Pfam PF18327: Proline utilization A proline dehydrogenase N-terminal domain (domain)
This is the N-terminal domain found in Proline utilization A (PutA) proteins. Proline utilization A (PutA) is a flavoprotein that has mutually exclusive roles as a transcriptional repressor of the put regulon and a membrane-associated enzyme that catalyzes the oxidation of proline to glutamate. The N-terminal region carries the flavoenzyme proline dehydrogenase (PRODH) domain which catalyzes the 2-electron oxidation of proline with the concomitant reduction of a flavin cofactor.
Pfam PF05161: MOFRL family (family)
MOFRL(multi-organism fragment with rich Leucine) family exists in bacteria and eukaryotes. The function of this domain is not clear, although it  exists in some putative enzymes such as reductases and kinases.
Pfam PF21504: Flagellin, barrel domain (domain)
This entry represents a barrel domain of flagellins FliC and FljB, which have a boomerang-shape with one arm composed of domain D1 and the other formed by D2 and D3. This entry corresponds to  to subdomain D2b described in.
Pfam PF24400: Family of unknown function (DUF7544) (family)
This entry represents a family of uncharacterised prokaryotic proteins. They are likely associated with the membrane and consists of several transmembrane helices.
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 PF02595: Glycerate kinase family (family)
This is family of Glycerate kinases.
Wikipedia: In enzymology, a glycerate kinase is an enzyme that catalyzes the chemical reactionATP + (R)-glycerate  ADP + 3-phospho-(R)-glycerate
or
ATP + (R)-glycerate  ADP + 2-phospho-(R)-glycerate
Pfam PF05130: FlgN protein (family)
This family includes the FlgN protein and export chaperone involved in flagellar synthesis.
Pfam PF08538: Protein of unknown function (DUF1749) (domain)
This is a plant and fungal family of unknown function.  This family contains many hypothetical proteins.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF06708: Protein of unknown function (DUF1195) (family)
This family consists of several plant specific hypothetical proteins of around 160 residues in length. The function of this family is unknown.
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 PF06482: Collagenase NC10 and Endostatin (domain)
NC10 stands for Non-helical region 10 and is taken from [swissprot:P39059]. A mutation in this region in [swissprot:P39060] is associated with an increased risk of prostrate cancer. This domain is cleaved from the precursor and forms endostatin. Endostatin is a key tumour suppressor and has been used highly successfully to treat cancer. It is a potent angiogenesis inhibitor (). Endostatin also binds a zinc ion near the N-terminus; this is likely to be of structural rather than functional importance according to ().
Pfam PF14020: Protein of unknown function (DUF4236) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria and viruses. Proteins in this family are typically between 69 and 402 amino acids in length.
Pfam PF10342: Kre9/KNH-like N-terminal Ig-like domain (domain)
This entry represents the N-terminal Ig-like domain found in a family of serine- threonine-rich membrane-anchored proteins, anchored by glycosyl-phosphatidylinositol. This family includes Kre9. In A. fumigatus these proteins play a role in fungal cell wall organisation. In Lentinula edodes this family is involved in fruiting body formation, and may have a more general role in signalling in other organisms as it interacts with MAPK. The family is also found in archaea and bacteria.
Pfam PF03993: Domain of Unknown Function (DUF349) (domain)
This domain is found singly or as up to five tandem repeats in a small set of  bacterial proteins. There are two or three alpha-helices, and possibly a beta-strand.
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 PF13061: Protein of unknown function (DUF3923) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are approximately 80 amino acids in length.
Pfam PF20476: Family of unknown function (DUF6718) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are approximately 80 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 PF09990: Predicted membrane protein (DUF2231) (family)
This domain, found in various hypothetical bacterial proteins, has no known function. It has similarity to [pfam:PF01292] suggesting it is a haem-binding cytochrome.
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 PF00844: Geminivirus coat protein/nuclear export factor BR1 family (family)
It has been shown that the 104 N-terminal amino acids of the maize streak virus coat protein bind DNA non- specifically. This family also includes various geminivirus movement proteins that are nuclear export factors or shuttles. One member BR1 facilitates the export of both ds and ss DNA form the nucleus.
Pfam PF02315: Methanol dehydrogenase beta subunit (domain)
Methanol dehydrogenase (MDH) is a bacterial periplasmic quinoprotein that oxidises methanol to formaldehyde. MDH is a tetramer of two alpha and two beta subunits. This family contains the small beta subunit.
Pfam PF00712: DNA polymerase III beta subunit, N-terminal domain (domain)
A dimer of the beta subunit of DNA polymerase beta forms a ring which encircles duplex DNA.  Each monomer contains three domains of identical topology and DNA clamp fold.
Wikipedia: A DNA clamp, also known as a sliding clamp, is a protein complex that serves as a processivity-promoting factor in DNA replication. As a critical component of the DNA polymerase III holoenzyme, the clamp protein binds DNA polymerase and prevents this enzyme from dissociating from the template DNA strand. The clamp-polymerase protein–protein interactions are stronger and more specific than the direct interactions between the polymerase and the template DNA strand; because one of the rate-limiting steps in the DNA synthesis reaction is the association of the polymerase with the DNA template, the presence of the sliding clamp dramatically increases the number of nucleotides that the polymerase can add to the growing strand per association event. The presence of the DNA clamp can increase the rate of DNA synthesis up to 1,000-fold compared with a nonprocessive polymerase.
Pfam PF12013: Orsellinic acid/F9775 biosynthesis cluster protein D (family)
This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. Family members include orsellinic acid/F9775 biosynthesis cluster protein D (orsD) from Emericella nidulans. The orsD gene is part of the cluster that encodes components for the biosynthesis of orsellinic acid, as well as biosynthesis of the cathepsin K inhibitors F9775 A and F9775 B, but the function of orsD is unknown. OrsD contains two segments that are likely to be C2H2 zinc binding domains.
Pfam PF21648: Integron cassette protein (domain)
This domain family is found in a group of bacterial uncharacterised sequences from mobile gene cassettes, including Integron cassette protein from Vibrio cholerae (M1E1E6). This protein forms a dimer in which each protomer adopts a two-layered alpha+beta fold with an anti-parallel beta-sheet of five strands which curves around a pair of antiparallel helices. Its specific function is unknown.
Pfam PF24662: Domain of unknown function (DUF7650) (domain)
This domain is found in uncharacterised proteins mainly from plants. It is predicted to adopt  mainly helical 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 PF23583: PLCG2-like, EF-hand (domain)
This entry represents an EF-hand domain found in human 1-phosphatidylinositol 4,5-bisphosphate phosphodiesterase gamma-2 (PLCG2) and similar animal proteins. PLCG2 is a crucial enzyme in transmembrane signalling. This protein has been associated with several disorders.
Pfam PF21792: Disabled homolog 2-like, sulfatide-binding motifs (conserved_site)
This region is found at the N-terminal end of human Disabled homolog 2 (DAB2) and similar sequences predominantly found in vertebrates. DAB2 is an adaptor protein involved in endocytosis, cell surface receptor turnover, and cell signalling. The membrane binding properties of this protein depend on its sulfatide-binding motifs (SBM, represented by this entry), which display a helical conformation. This region is N-terminal to the PID domain ([pfam:PF00640]).
Pfam PF11072: Protein of unknown function (DUF2859) (family)
This is a bacterial family of uncharacterised proteins.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF17157: Gammaproteobacterial periplasmic sensor domain (family)
GAPES4 (GAmmaproteobacterial PEriplasmic Sensor) domain is a periplasmic sensor domain found in various GGDEF- and EAL-containing proteins. In Escherichia coli, GAPES4 forms the N-terminal domain of the regulatory protein CsrD (YhdA), which contains enzymatically inactive GGDEF and EAL domains and controls CsrD) that controls the degradation of two non-coding RNAs, CsrB and CsrC. In Vibrio cholerae, GAPES4-containing protein MshH (Q9KUW1_VIBCH) inhibits biofilm formation, apparently acting through the glucose-specific enzyme IIA (Q9KTD8, [pfam:PF00358]).
Pfam PF12365: Protein of unknown function (DUF3649) (family)
This domain family is found in bacteria and eukaryotes, and is approximately 30 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 PF01242: 6-pyruvoyl tetrahydropterin synthase (domain)
6-Pyruvoyl tetrahydrobiopterin synthase catalyses the conversion of dihydroneopterin triphosphate to 6-pyruvoyl tetrahydropterin, the second of three enzymatic steps in the synthesis of tetrahydrobiopterin from GTP. The functional enzyme is a hexamer of identical subunits.
Pfam PF19915: MoxR-vWA-beta-propeller ternary system domain bpX0 (family)
Uncharacterized domain found in the MoxR-vWA-beta-propeller ternary system, a class of NTP-dependent biological conflict systems.
Pfam PF08316: Pal1 cell morphology protein (family)
Pal1 is a membrane associated protein that is involved in the maintenance of cylindrical cellular morphology.  It localises to sites of active growth.  Pal1 physically interacts and displays overlapping localisation with the Huntingtin-interacting-protein (Hip1)-related protein Sla2p/End4p.
Pfam PF07333: S locus-related glycoprotein 1 binding pollen coat protein (SLR1-BP) (domain)
This family consists of a number of cysteine rich SLR1 binding pollen coat like proteins. Adhesion of pollen grains to the stigmatic surface is a critical step during sexual reproduction in plants. In Brassica, S locus-related glycoprotein 1 (SLR1), a stigma-specific protein belonging to the S gene family of proteins, has been shown to be involved in this step. SLR1-BP specifically binds SLR1 with high affinity. The SLR1-BP gene is specifically expressed in pollen at late stages of development and is a member of the class A pollen coat protein (PCP) family, which includes PCP-A1, an SLG (S locus glycoprotein)-binding protein.
Pfam PF01994: tRNA ribose 2'-O-methyltransferase, aTrm56 (family)
This family is an aTrm56 that catalyses the 2'-O-methylation of the cytidine residue in archaeal tRNA, using S-adenosyl-L-methionine. Biochemical assays showed that aTrm56 forms a dimer and prefers the L-shaped tRNA to the lambda form as its substrate.  aTrm56 consists of the SPOUT domain, which contains the characteristic deep trefoil knot for AdoMet binding, and a unique C-terminal beta-hairpin.
Pfam PF08104: Ponericin L family (family)
This family consists of the ponericin L family of antimicrobial peptides that are isolated from the venom of the predatory ant Pachycondyla goeldii. Ponericin L family shares similarities with dermaseptins. Ponericin L may adopt an amphipathic alpha-helical structure in polar environments and these peptides exhibit a defensive role against microbial pathogens arising from prey introduction and/or ingestion.
Pfam PF22824: DNA transposase THAP9, C-terminal domain (domain)
This domain is found at the C-terminal of human DNA transposase THAP9 and similar proteins mainly from vertebrates. This domain is predicted to be mainly formed by alpha-helices.
Pfam PF06986: F-type Type IV secretion system, TraN (family)
TraN is a large cysteine-rich outer membrane protein involved in the mating-pair stabilisation (adhesin) component of the F-type conjugative plasmid transfer system. TraN is believed to interact with the core type IV secretion system apparatus through the TraV protein.
Pfam PF23148: Podophage GP4 fiber-tail adaptor protein gp77 (family)
This entry represents the Podophage GP4 fiber-tail adaptor protein gp77 and related phage proteins. Bacteriophage tail fibers play a critical role in the early stage of infection by binding to the bacterial surface. In Podophage GP4, five fiber I, each composed of five dimers of gp80 and linked by rope protein, are attached to the five edges of the tail vertex of the icosahedral head of the phage. The fiber-tail adaptor acts as a fulcrum, encircling the dodecameric adaptor I and providing the anchoring sites for the 5-fold symmetric fibers I and II. This circular fiber-tail adaptor consists of 15 copies of protein gp77. Gp77 folds into a beta-sandwich with an Ig-like topology.
Pfam PF16036: Chalcone isomerase-like (domain)
Chalcone_3 is a family of largely bacterial members.
Wikipedia: In enzymology, a chalcone isomerase is an enzyme that catalyzes the chemical reactiona chalcone  a flavanone
Pfam PF04622: ERG2 and Sigma1 receptor like protein (family)
This family consists of the fungal C-8 sterol isomerase and mammalian sigma1 receptor. C-8 sterol isomerase (delta-8--delta-7 sterol isomerase), catalyses a  reaction in ergosterol biosynthesis, which results in unsaturation at C-7 in the B ring of sterols. Sigma 1 receptor is a low molecular mass mammalian protein located in the  endoplasmic reticulum, which interacts with endogenous steroid hormones, such as progesterone and testosterone.  It also binds the  sigma ligands, which are are a set of chemically unrelated drugs including haloperidol, pentazocine, and ditolylguanidine.   Sigma1 effectors are not well understood, but sigma1 agonists have been observed to affect NMDA  receptor function, the alpha-adrenergic system and opioid analgesia.
Wikipedia: Sigma receptors (σ-receptors) are protein receptors that bind ligands such as 4-PPBP, SA 4503 (cutamesine), ditolylguanidine, dimethyltryptamine, and siramesine. There are two subtypes, sigma-1 receptors (σ1) and sigma-2 receptors (σ2), which are classified as sigma receptors for their pharmacological similarities, even though they are evolutionarily unrelated.
Pfam PF01547: Bacterial extracellular solute-binding protein (family)
This family also includes the bacterial extracellular solute-binding protein family POTD/POTF.
Pfam PF22568: Tetracyclin repressor-like, C-terminal domain (domain)
This domain is found at the C-terminal end of Transcriptional regulator [swissprot:Q8DWD0] from Streptococcus mutans and similar sequences from firmicutes. It is normally found associated with [pfam:PF00440]. This domain shows an all-alpha configuration.
Pfam PF18576: Helix-turn-helix domain (domain)
This is a helix turn helix domain found in bacilli.
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 PF02350: UDP-N-acetylglucosamine 2-epimerase (family)
This family consists of UDP-N-acetylglucosamine 2-epimerases [ec:5.1.3.14] this enzyme catalyses the production of UDP-ManNAc from UDP-GlcNAc.  Note that some of the enzymes is this family are bifunctional such as [swissprot:O35826] and [swissprot:Q9Z0P6] in this instance Pfam matches only the N-terminal half of the protein suggesting that the additional C-terminal part (when compared to mono-functional members of this family) is responsible for the UPD-N-acetylmannosamine kinase activity of these enzymes. This hypothesis is further supported by the assumption that the C-terminal part of [swissprot:O35826] is the kinase domain.
Wikipedia: In enzymology, an UDP-N-acetylglucosamine 2-epimerase is an enzyme that catalyzes the chemical reactionUDP-N-acetyl-D-glucosamine  UDP-N-acetyl-D-mannosamine
Pfam PF03428: Replication protein C N-terminal domain (domain)
Replication protein C is involved in the early stages of viral DNA replication.
Pfam PF11124: Inorganic phosphate transporter chaperone Pho86 (family)
Pho86p is an ER chaperone required for chaperoning multi-pass membrane proteins through the ER membrane compartment. It is essential for growth when phosphate levels are limiting, being involved in the regulation of Pho84p, a high-affinity phosphate transporter which is localised to the endoplasmic reticulum (ER) in low phosphate medium. When the level of phosphate increases Pho84p is transported to the vacuole. Pho86p is required for packaging of Pho84p in to COPII vesicles. This entry also includes the Uncharacterized protein C12B10.02c from S. pombe ([swissprot:Q10436]), which is thought to be an orthologue of S. cerevisiae Pho86.
Pfam PF18919: Family of unknown function (DUF5670) (family)
This family of proteins is found in bacteria and archaea. Proteins in this family are approximately 50 amino acids in length. There is a single completely conserved residue W that may be functionally important. These proteins contain two transmembrane helices.
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 PF07118: Protein of unknown function (DUF1374) (family)
This family consists of several hypothetical Sulfolobus virus proteins of around 100 residues in length. The function of this family is unknown.
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.