SII-SWORD/CoKE huggingface dataset:
Pfam PF14205: Cysteine-rich KTR (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria and viruses. Proteins in this family are approximately 60 amino acids in length. There are 4 conserved cysteines and a conserved KTR sequence motif.
Pfam PF22589: Sperm microtubule inner protein 1 (family)
This family represents the homologues of Sperm microtubule inner protein 1 (SPMIP1, also known as ATP6V1FNB). SPMIP1 is a microtubule inner protein (MIP) part of the doublet microtubules (DMTs) in the sperm axoneme. It binds to protofilament B09 along with CFAP90 in the sperm DMTs.
Pfam PF15860: Domain of unknown function (DUF4728) (family)
This family of arthropod proteins is functionally uncharacterised.
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 PF08661: Replication factor A protein 3 (domain)
Replication factor A is involved in eukaryotic DNA replication, recombination and repair.
Pfam PF25013: Zer-1-like, Leucine-rich repeats (repeat)
This region of leucine-rich repeats (LRR) is found in Zyg eleven-related protein 1 from Caenorhabditis elegans (Zer-1) and similar eukaryotic proteins. Zer-1 functions as a target recruitment subunit in the E3 ubiquitin ligase complex zer-1-cul-2-elc-1.
Pfam PF01227: GTP cyclohydrolase I (domain)
This family includes GTP cyclohydrolase enzymes and a family of related bacterial proteins including [swissprot:Q46920].
Pfam PF11296: DUF3097, C-terminal domain (domain)
This entry represents an C-terminal Toprim-like domain found in DUF3097 proteins. This family of proteins with unknown function appears to be restricted to Actinobacteria.
Pfam PF02999: Borrelia orf-D family (family)
Borrelia burgdorferi supercoiled plasmids encode multicopy tandem open reading frames called Orf-A, Orf-B, Orf-C and Orf-D. This family corresponds to Orf-D. The putative product of this gene has no known function.
Pfam PF18991: Family of unknown function (DUF5724) (repeat)
This is a family of unknown function mainly found in bacteria. This region is formed of a slightly irregular alpha solenoid related to HEAT repeats.
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 PF08240: Alcohol dehydrogenase GroES-like domain (domain)
This is the catalytic domain of alcohol dehydrogenases.  Many of them contain an inserted zinc binding domain. This domain  has a GroES-like structure.
Pfam PF22387: Phage phiCb5, coat protein (family)
This family includes Coat protein from Caulobacter phage phiCb5 ([swissprot:D7RIC2]), which consists of an N-terminal loop, a five -stranded beta-sheet and a C-terminal arm containing two helices..
Pfam PF22029: Sigma2 domain of PhyR (domain)
This is the N-terminal domain of response regulator PhyR and related proteins. It consists of three alpha-helices and together with sigma4 constitutes the PhyR sigma-like (SL) domain. This domain was shown to bind to anti-sigma factor NepR.
Pfam PF21546: Carbohydrate kinase FGGY, C-terminal domain (domain)
This domain is found at the C-terminal end of Carbohydrate kinase, FGGY from Novosphingobium aromaticivorans and similar bacterial proteins. This protein may catalyse the transfer of a phosphate group from ATP to their carbohydrate substrates. It contain two large domains, which are separated by a deep cleft. This domain, thought to be responsible for ATP binding, shows an alpha-beta configuration.
Pfam PF10559: Plug domain of Sec61p (domain)
The Sec61/SecY translocon mediates translocation of proteins across the membrane and integration of membrane proteins into the lipid bilayer. The structure of the translocon revealed a plug domain blocking the pore on the lumenal side.The plug is unlikely to be important for sealing the translocation pore in yeast but it plays a role in stabilising Sec61p during translocon formation. The domain runs from residues 52-74.
Pfam PF05345: Putative Ig domain (domain)
This alignment represents the conserved core region of ~90 residue repeat found in several haemagglutinins and other cell surface proteins. Sequence similarities to  ([pfam:PF02494]) and ([pfam:PF00801]) suggest an Ig-like fold (personal obs:C. Yeats). So this family may be similar in function to the ([pfam:PF02639]) and  ([pfam:PF02638]) domains. This domain is also found in the WisP family of proteins of Tropheryma whipplei ().
Pfam PF02586: SOS response associated peptidase (SRAP) (family)
The SRAP family functions as a DNA-associated autoproteolytic switch that recruits diverse repair enzymes onto DNA damage. We propose that the human protein Q96FZ2:UniProtKB, the eukaryotic member of the SRAP family, which has been recently shown to bind specifically to DNA with 5-hydroxymethylcytosine, 5-formylcytosine and 5-carboxycytosine, is a sensor for these oxidized bases generated by the TET (tetrahedral aminopeptidase of the M42 family) enzymes from methylcytosine. Hence, its autoproteolytic activity might help it act as a switch that recruits DNA repair enzymes to remove these oxidized methylcytosine species as part of the DNA demethylation pathway downstream of the TET enzymes.
Pfam PF15778: UNC80 N-terminal (family)
UNC80 is a family of proteins found in eukaryotes. This entry represents the N-terminal domain. NALCN and UNC80 form a complex in mouse brain, both being tyrosine-phosphorylated; this phosphorylation can be inhibited by PP1. NALCN as the cation channel activated by substance P receptor, and the coupling from receptor to channel is facilitated by UNC80 and Src kinases rather than by a G-protein.
Pfam PF08643: Fungal family of unknown function (DUF1776) (family)
This is a fungal family of unknown function.  One of the proteins in this family [swissprot:P32792] has been localised to the mitochondria.
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 PF20874: Relaxase central domain (domain)
This domain is found in some relaxase proteins.
Pfam PF04790: Sarcoglycan complex subunit protein (family)
The dystrophin glycoprotein complex (DGC) is a membrane-spanning complex that links the interior cytoskeleton to the extracellular matrix in muscle.          The sarcoglycan complex is a subcomplex within the DGC and is composed of several muscle-specific, transmembrane proteins (alpha-, beta-, gamma-, delta- and zeta-sarcoglycan). The sarcoglycans are asparagine-linked glycosylated proteins with single transmembrane domains.  This family contains beta, gamma and delta members.
Wikipedia: The sarcoglycans are a family of transmembrane proteins involved in the protein complex responsible for connecting the muscle fibre cytoskeleton to the extracellular matrix, preventing damage to the muscle fibre sarcolemma through shearing forces.
Pfam PF12983: Protein of unknown function (DUF3867) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are approximately 190 amino acids in length.
Pfam PF05543: Staphopain peptidase C47 (family)
Staphopains are one of four major families of  proteinases secreted by  the Gram-positive Staphylococcus aureus. These staphylococcal cysteine proteases are secreted as preproenzymes that are proteolytically cleaved to generate the mature enzyme.
Pfam PF12577: PPAR gamma N-terminal region (family)
Peroxisome proliferator-activated receptors (PPAR) are nuclear hormone receptors that control the expression of genes involved in lipid homeostasis in mammals.  This sequence region is found at the N-terminus of these proteins. The family is found in association with [pfam:PF00104], [pfam:PF00105]. It is not clear if this region is a separate protein domain.
Pfam PF22291: Family of unknown function (DUF6964) (domain)
This short helical domain is found in a small set of ribosomal S1 proteins. It's function 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 PF20975: DGC-associated coil (domain)
This entry represents the DGC-associated coil (DGCcoil) domain found widespread in gammaproteobacteria. This is an alpha-helical cytoplasmic domain found N-terminal of the GGDEF domain.
Pfam PF01609: Transposase DDE domain (domain)
Transposase proteins are necessary for efficient DNA transposition. This domain is a member of the DDE superfamily, which contain three carboxylate residues that are believed to be responsible for coordinating metal ions needed for catalysis. The catalytic activity of this enzyme involves DNA cleavage at a specific site followed by a strand transfer reaction. This family contains transposases for  IS4 [swissprot:P03835],  IS421 [swissprot:P11901], IS5377 [swissprot:Q45620], IS427, IS402, IS1355 [swissprot:O69604], IS5, which was original isolated in bacteriophage lambda.
Pfam PF15159: Phosphatidylinositol N-acetylglucosaminyltransferase subunit Y (family)
This family of proteins represents subunit Y of the GPI-N-acetylglucosaminyltransferase (GPI-GnT) complex. It may regulate activity of the complex by binding the catalytic subunit, PIG-A. This family includes the ERI1 subunit found in yeast,  such as [swissprot:P62651].
Pfam PF21217: Stability determinant (family)
This protein family includes Stability determinant from Escherichia  coli (PaaA2) and similar proteins predominantly found in bacteria. PaaA2 is an antitoxin from prokaryotic type II toxin-antitoxin three- component module paaR2-paaA2-parE2 that belongs to the RelB- antitoxin family but lacks a DNA-binding domain. This protein shows two alpha-helices and adopts defined loop conformations when it wraps itself around the toxin ParE2.
Pfam PF11316: Putative rhamnosyl transferase (family)
Most members of this family are uncharacterised, but one is a putative side-chain-rhamnosyl transferase.
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 PF24939: Domain of unknown function (DUF7756) (domain)
This is a presumed domain found in sequences from Strongyloides stercoralis and similar worms. It may adopt a beta-sandwich fold related to MATh 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 PF03558: TBSV core protein P21/P22 (family)
This protein is required for cell-to-cell movement in plants. Furthermore, the membrane-associated protein is dispensable for both replication and transcription.
Pfam PF12628: Falstatin, cysteine peptidase inhibitor (family)
This family of peptidase inhibitors is expressed from plasmodial protozoal species. Falstatin is found to be a potent reversible inhibitor of the P. falciparum cysteine proteases falcipain-2 and falcipain-3, as well as other parasite- and non-parasite-derived cysteine proteases, but is only a relatively weak inhibitor of the P. falciparum cysteine proteases falcipain-1 and dipeptidyl aminopeptidase 1. Thus, P. falciparum requires expression of falstatin to limit proteolysis by certain host or parasite cysteine proteases during erythrocyte invasion.
Pfam PF09119: SicP binding (domain)
Members of this family bind the chaperone SicP, which is required both to maintain the stability of SptP, as well as to ensure the eventual secretion of the protein. The domain is found in the Salmonella effector protein SptP, which interacts with SicP chaperone dimers mainly through four regions of its chaperone-binding domain. The structure of the SptP-SicP complex contains four molecules of SicP, aligned in a linear fashion and arranged in two sets of tightly bound homodimers that bind two SptP molecules. The SicP homodimers do not interact with each other, but are held together by a molecular interface formed between two SptP molecules. Each SptP molecule is wrapped around by three SicP chaperones (two chaperones from one homodimer and a third one from the opposite homodimer pair).
Pfam PF04702: Vicilin N terminal region (family)
This region is found in plant seed storage proteins, N-terminal to the Cupin domain ([pfam:PF00190]). In Macadamia integrifolia ([swissprot:Q9SPL4]), this region is processed into peptides of approximately 50 amino acids containing a C-X-X-X-C-(10-12)X-C-X-X-X-C motif.  These peptides exhibit antimicrobial activity in vitro.
Pfam PF22933: ComC, supersandwich domain (domain)
This domain is found in CamC from Dictyostelium discoideum and related proteins from Amoebozoa species. It adopts a supersandwich fold with a greater similarity to GLMP luminal domain.
Pfam PF00867: XPG I-region (family)
This entry represents a domain found on Xeroderma Pigmentosum Complementation Group G (XPG) protein . XPG is a DNA endonuclease involved in DNA excision repair . The internal XPG (XPG-I) domain contains many cysteine and glutamate amino acid residues that are frequently found in various enzyme active sites of DNA nucleases. The I domain, together with the N-terminal, forms the catalytic domain that contains the active site .
Wikipedia: In molecular biology, the XPG-I is a protein domain found on Xeroderma Pigmentosum Complementation Group G (XPG) protein. The XPG protein is an endonuclease which repairs DNA damage caused by ultraviolet light. The XPG protein repairs DNA by a process called, Nucleotide excision repair. Mutations in the protein commonly cause Xeroderma Pigmentosum which often lead to skin cancer.
Pfam PF20893: Domain of unknown function (DUF6845) (domain)
This domain is found at the N-terminal end of uncharacterized DUF3829-like proteins. It might be related to [pfam:PF12889]. Its function 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 PF11271: Porin PorA (family)
Members of this family include PorA, a channel-forming protein found mostly in Gram-positive bacteria.
Pfam PF00787: PX domain (domain)
PX domains bind to phosphoinositides.
Wikipedia: The PX domain is a phosphoinositide-binding structural domain involved in targeting of proteins to cell membranes.
Pfam PF17181: Epidermal patterning factor proteins (family)
EPF is a family of plant epidermal cell growth factors.  It is a signalling peptide that determines the spacing and separation of the development of stomatal cells in the upper epidermis of plant leaf cells.
Pfam PF14930: Quinohemoprotein amine dehydrogenase, alpha subunit domain II (domain)
This is the second domain of the alpha subunit of quinohemoprotein amine dehydrogenase
Pfam PF09093: Lyase, catalytic (repeat)
Members of this family are predominantly found in chondroitin ABC lyase I, and adopt a helical structure, with fifteen alpha-helices which are at least two turns long and several short helical turns. The bulk of the domain is formed by ten alpha-helices forming five hairpin-like pairs and arranged into an incomplete toroid, the (alpha/alpha)5 fold. Additionally, two long and two short alpha-helices at the N terminus of the domain wrap around the toroid. At the C-terminal end of the toroid there is one additional short alpha-helix. This domain is required for degradation of polysaccharides containing 1,4-beta-D-hexosaminyl and 1,3-beta-D-glucoronosyl or 1,3-alpha-L-iduronosyl linkages to disaccharides containing 4-deoxy-beta-D-gluc-4-enuronosyl groups.
Pfam PF20855: CPV Capsid shell protein VP1, small protrusion domain (domain)
This domain is found in Capsid shell protein VP1 from Cytoplasmic polyhedrosis virus (CPV). VP1, one of the three major capsid proteins of CPV, has an overall thin-plate-like shape similar to its counterparts in other reoviruses except for a protrusion domain on the outer capsid surface, which is unique in single-layered cypoviruses.
Pfam PF23575: Protein jagged-1-like, predicted ferredoxin-like domain (domain)
This domain is found in human Protein jagged-1 (JAG1) and similar proteins from vertebrates. JAG1 is involved in the mediation of Notch signalling. This domain is predicted to show a ferredoxin-like fold.
Pfam PF00285: Citrate synthase, C-terminal domain (domain)
This is the long, C-terminal part of the enzyme.
Wikipedia: In molecular biology, the citrate synthase family of proteins includes the enzymes citrate synthase EC 2.3.3.1, and the related enzymes 2-methylcitrate synthase EC 2.3.3.5 and ATP citrate lyase EC 2.3.3.8.
Pfam PF10546: P63C domain (domain)
This domain was identified by Iyer and colleagues.
Pfam PF06882: Protein of unknown function (DUF1263) (family)
This family represents a conserved region located towards the C-terminus of a number proteins of unknown function that seem to be specific to Oryza sativa.
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 PF20592: Putative adhesin domain (group 10) (family)
This domain is found N-terminal to repeating stalk domains  in bacterial surface proteins. The structure model of this domain consists out of seven beta-strands within two beta-sheets, similar  to the RrgB pilus backbone, which was again described to correspond  to the collagen binding domain. The position of this domain at the  tip of bacterial surface proteins suggests an adhesive function.
Pfam PF16500: Cyclin-A N-terminal APC/C binding region (disordered)
This entry represents a disorder region found upstream of the family Cyclin_N, [pfam:PF00134]. This region controls the stability of the region by recruiting the APC/C. This region includes the ABBA motif.
Pfam PF12177: Prohormone convertase enzyme (domain)
This domain family is found in eukaryotes, and is approximately 40 amino acids in length. The family is found in association with [pfam:PF01483], [pfam:PF00082]. There are two completely conserved residues (Y and D) that may be functionally important. This protein is the C terminal domain of a prohormone convertase enzyme which targets hormones in dense core secretory granules. This C terminal tail domain is the domain responsible for targeting these dense core secretory granules. The domain adopts an alpha helical structure.
Pfam PF09988: Uncharacterized metal-binding protein (DUF2227) (domain)
Members of this family of hypothetical bacterial proteins possess metal binding properties; however, their exact function has not, as yet, been determined.
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 PF24635: Domain of unknown function (DUF7632) (domain)
This is a presumed helical domain found at the C-terminal of a group of uncharacterised sequences from Plasmodium falciparum and related sequences from Apicomplexa.
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 PF24290: Domain of unknown function (DUF7478) (repeat)
This entry represents a domain containing a novel repeat fold, according to structure predictions. It may comprise six repeats, each of them consisting of two antiparallel beta-strands and a short alpha-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.