SII-SWORD/CoKE huggingface dataset:
Pfam PF20440: GvpD basic region 2 (domain)
GvpD is a regulator of gas vesicle formation acting as a repressor through the interaction and breakdown induction of the transcriptional activator GvpE. This entry represents the C-terminal domain of GvpD, which contains the second basic region (bR2, arginine-rich) that may be important for its function.
Pfam PF20626: Zona-pellucida-binding protein (Sp38) C-terminal EGF-like domain (domain)
This entry represents the C-terminal EGF-like domain found in a number of zona-pellucida-binding proteins that seem to be restricted to mammals. These are sperm proteins that bind to the 90-kDa family of zona pellucida glycoproteins in a calcium-dependent manner. These represent some of the specific molecules that mediate the first steps of gamete interaction, allowing fertilisation to occur.
Pfam PF12955: Vacuolar sorting protein Vps3844, C-terminal domain (domain)
This entry represents the C-terminal domain (previously known as DUF3844) of the uncharacterised endoplasmic reticulum membrane protein C1709.03 which was renamed to vacuolar sorting protein Vps3844. This domain contains eight largely conserved cysteine residues and the region comprising amino acids 354 to 380 is important for protein trafficking to the vacuole. This protein is conserved in fungi, particularly S. pombe, but lacks representation in S. cerevisiae.
Pfam PF01345: Domain of unknown function DUF11 (domain)
A domain of unknown function found in multiple copies in several archaebacterial proteins. Conserved N-terminal lysine and C-terminal asparagine with central asp/glu suggests that many of these domain may contain an isopeptide bond. In Methanothermobacter sp. CaT2, a DUF11-containing repeat hypothetical protein encoded by MTCT_1020 plays a key role as a membrane-bound adhesion protein in the aggregation of CaT2. DUF11-containing repeat domains are not involved in aggregation, but may be important for stabilizing the surface cell wall structures of CaT2.
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 PF20032: ADYC domain (domain)
This domain is named ADYC after the most conserved motif. This family of proteins is functionally uncharacterised. This family of proteins is found in proteobacteria and cyanobacteria. Proteins  in this family are typically between 280 and 416 amino acids in  length. This family has 7 conserved cysteine and one conserved  histidine which might indicate a zinc-binding function.
Pfam PF20090: Family of unknown function (DUF6482) (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.
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 PF05197: TRIC channel (family)
TRIC (trimeric intracellular cation) channels are differentially expressed in intracellular stores in animal cell types. TRIC subtypes contain three proposed transmembrane segments, and form homo-trimers with a bullet-like structure. Electrophysiological measurements with purified TRIC preparations identify a monovalent cation-selective channel.
Pfam PF20814: CAA3-type cytochrome c oxidase subunit IV (family)
Cytochrome c oxidase plays a key role in the respiratory chain of mitochondria and aerobic prokaryotes. This electron transfer complex consists of three subunits, SU I/III, IIc and IV, which together form a bundle of 23 transmembrane (TM) helices and a bulky extra-membrane cytochrome c/cupredoxin domain. This family represents subunit IV, which shows two connected TM helices. It is predominantly found in Deinococcus-Thermus.
Pfam PF23490: ZCCHC24 C-terminal domain (domain)
This domain is found in homologues of human ZCCHC24 protein. It is located near C terminus and usually follows the zinc ribbon domain. It contains highly conserved histidine and cysteine residues in unusual arrangement (HCCC) that are likely to coordinate zinc.
Pfam PF06556: IAP-like protein p27 C-terminus (family)
This family represents the C-terminal region of the African swine fever virus IAP-like protein p27. This family is found in conjunction with [pfam:PF00653]. It has been suggested that the family may be a host range gene involved in aspects of infection in the arthropod host, ticks of the genus Ornithodoros.
Pfam PF15625: CC2D2A N-terminal C2 domain (domain)
Many ciliary proteins are involved in ciliogenesis and implicated for ciliophathies. A recent study has shown that many of them contain various new versions of C2 domains which are predicted to mediate membrane localisations for Y-shaped linkers of transition        zone of cilia. This is the first C2 domain of ciliary CC2D2A  proteins which also have another C2 domain (CC2D2AC-C2) and  a new inactive transglutaminase-like peptidase domain (CC2D2A-TGL).
Pfam PF17537: Family of unknown function (DUF5455) (family)
This is a family of unknown function found in Proteobacteria. Family members contain three predicted trans-membrane regions.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF25133: Archaeal TYW2 N-terminal domain (domain)
This is the N-terminal domain of the tRNA-wybutosine synthesizing enzyme TYW2 from Pyrococcus horikoshii and related sequences. This domain consists of six beta-strands and three alpha-helices.
Pfam PF24356: PARP12 winged helix domain (domain)
This domain is found in the human Protein mono-ADP-ribosyltransferase PARP12 and related proteins. PARP12 is a mono-ADP-ribosyltransferase that mediates mono-ADP-ribosylation of target proteins. The domain represented by this entry has a detectable sequence similarity to HTH winged helix domains and it is predicted to adopt similar structure.
Pfam PF06870: A49-like RNA polymerase I associated factor (family)
Saccharomyces cerevisiae A49 is a specific subunit associated with RNA polymerase I (Pol I) in eukaryotes. Pol I maintains transcription activities in A49 deletion mutants. However, such mutants are deficient in transcription activity at low temperatures.  Deletion analysis of the fusion yeast  homolog indicate that only the C-terminal two thirds are required for function.  Transcript analysis has demonstrated that A49 is maximising transcription of ribosomal DNA.
Pfam PF09210: 1,4-alpha-glucan branching enzyme, C-terminal (domain)
This entry represents the C-terminal domain found in bacterial 1,4-alpha-glucan branching enzymes, such as TTHA1902 from Thermus thermophilus and TK1436 from Thermococcus kodakarensis, which belong to the glycoside hydrolase family 57 (GH57). These enzymes catalyse the formation of branch points in alpha-glucans by cleavage of an alpha-1,4 glycosidic bond and subsequent transfer of the cleaved-off oligosaccharide to a new alpha-1,6 position. This is an alpha-helical domain composed of a four alpha-helical bundle. It plays a role in the formation of the active-site cleft, being essential for substrate binding and catalysis.
Pfam PF00372: Hemocyanin, copper containing domain (domain)
This family includes arthropod hemocyanins and insect larval storage proteins.
Wikipedia: Hemocyanins (also spelled haemocyanins and abbreviated Hc) are proteins that transport oxygen throughout the bodies of some invertebrate animals. These metalloproteins contain two copper atoms that reversibly bind a single oxygen molecule (O2). They are second only to hemoglobin in frequency of use as an oxygen transport molecule. Unlike the hemoglobin in red blood cells found in vertebrates, hemocyanins are not confined in blood cells, but are instead suspended directly in the hemolymph. Oxygenation causes a color change between the colorless Cu(I) deoxygenated form and the blue Cu(II) oxygenated form.
Pfam PF15556: ZW10 interactor (family)
ZW10 interactor (also known as Zwint-1) is part of the MIS12 complex, which is required for kinetochore formation and spindle checkpoint activity. It recruits ZW10 to unattached kinetochores at prometaphase. It is essential for stable binding of a Mad1-Mad2 complex to unattached kinetochores. It can be phosphoryltated by Aurora B (AurB) kinase.
Pfam PF19958: Effector-associated domain 6 (domain)
Effector-associated domains (EADs) are predicted to function as adaptor domains mediating protein-protein interactions. The EADs show a characteristic architectural pattern. One copy is always fused, typically to the N- or C-terminus, of a core component of a biological conflict system; examples include VMAP, iSTAND, or GAP1. Further copies of the same EAD are fused to either effector or signal-transducing domains, or additional EADs. EAD pairs are frequently observed together on the genome in conserved gene neighborhoods, but can also be severed from such neighborhoods and located in distant regions, indicating the EAD-EAD coupling approximates the advantages of collinear transcription. Profile-profile searches unify EAD6 with the Death superfamily of domains.
Pfam PF06162: Putative pyroglutamyl peptidase PgaPase_1 (domain)
PgaPase_1 is a family of functionally diverse Caenorhabditis proteins. The family is homologous to the cysteine-peptidases, but lack of a strictly conserved Glu-Cys-His catalytic triad or pGlu binding site implies that it has other functions that could have resulted in a change in reaction-specificity or even of catalytic activity.
Pfam PF01802: Herpesvirus VP23 like capsid protein (family)
This family consist of various capsid proteins from members  of the herpesviridae. The capsid protein VP23 in herpes simplex virus forms a triplex together with VP19C these fit between and link together adjacent capsomers as formed by VP5 and VP26. VP3 along with the scaffolding proteins helps to form normal capsids by defining the curvature of the shell and size of the particle.
Pfam PF16953: Protein-only RNase P (domain)
PRORPs (protein-only RNase P) are a class of RNA processing enzymes that catalyze maturation of the 5' end of precursor tRNAs in Eukaryotes. Arabidopsis thaliana contains PRORP enzymes (PRORP1, PRORP2 and PRORP3) where PRORP1 localizes to mitochondria as well as chloroplasts, while PRORP2 and PRORP3 are found in the nucleus. In humans and most other metazoans, mt-RNase P is composed of three protein subunits (mitochondrial RNase P proteins 1-3; MRPP1-3), homologs to the Arabidopsis thaliana PRORP1-3. This domain corresponds to the metallonuclease domain of PRORPs. PRORP1 has 22% sequence identity to the human homologue MRPP3. PRORP1 crystal structure shows a V-shaped tripartite structure with a C-terminal metallonuclease domain of the NYN (N4BL1, YacP-like nuclease) family, with a typical and functional two-metal-ion catalytic site that has conserved aspartate residues.
Pfam PF17184: Rit1 N-terminal domain (domain)
This domain is the N-terminal domain from the enzyme ([ec:2.4.2.-]) which modifies exclusively the initiator tRNA in position 64 using 5'-phosphoribosyl-1'-pyrophosphate as the modification donor. As the initiator tRNA participates both in the initiation and elongation of translation, the 2'-O-ribosyl phosphate  modification discriminates the initiator tRNAs from the elongator tRNAs. The N-terminal domain is the most conserved region of the protein.
Pfam PF18731: Swt1-like HEPN (domain)
Swt1-like HEPN. This HEPN domain might have a role in binding and sensing unspliced pre-mRNAs that are specifically targeted by the Swt1 nuclease at the nuclear envelope.
Pfam PF09475: Dot/Icm secretion system protein (dot_icm_IcmQ) (family)
Proteins in this entry are the IcmQ component of Dot/Icm secretion systems, as found in the obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii. While this system resembles type IV secretion systems and has been called a form of type IV, the literature now seems to favour calling this the Dot/Icm system. This protein was shown to be essential for translocation.
Pfam PF10946: Protein of unknown function DUF2625 (family)
Some members in this family of proteins are annotated as ybfG however currently no function is known.
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 PF08349: Protein of unknown function (DUF1722) (family)
This domain of unknown function is found in bacteria and archaea and is homologous to the hypothetical protein ybgA from E. coli.
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 PF02720: Domain of unknown function (DUF222) (family)
This family is often found associated to the N-terminus of the HNH endonuclease domain [pfam:PF01844]. The function of this domain is uncertain. This family has been called the 13E12 repeat family.
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 PF09900: Predicted membrane protein (DUF2127) (family)
This domain, found in various hypothetical prokaryotic and archaeal 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 PF05327: RNA polymerase I specific transcription initiation factor RRN3 (repeat)
This family consists of several eukaryotic proteins which are homologous to the yeast RRN3 protein. RRN3 is one of the RRN genes specifically required  for the transcription of rDNA by RNA polymerase I (Pol I) in Saccharomyces cerevisiae.
Pfam PF18846: Bacterial archaeo-eukaryotic release factor family 5 (family)
Bacterial family of the archaeo-eukaryotic release factor superfamily. Likely to play roles in biological conflicts or regulation under stress conditions at the ribosome. This family unusually lacks the fusion to the C-terminal Pelota domain.
Pfam PF04181: Rtr1/RPAP2 family (family)
This family includes the human RPAP2 (RNAP II associated polypeptide) protein and the yeast Rtr1 protein. It has been suggested that this family of proteins are regulators of core RNA polymerase II function.
Pfam PF15010: Putative cell signalling (family)
The precise function of this protein family is unknown, however studies have shown it undergoes Protein N-myristoylation; a type of lipid modification in eukaryotic and viral proteins. Protein N-myristoylation is usually an irreversible co-translational protein modification which is useful in cell signal transduction pathways. This indicates that FAM131 may have some sort of role in cell signalling due to its ability to be myristoylated. This family of proteins is found in eukaryotes and are typically between 257 and 361 amino acids in length.
Pfam PF19543: Glycoside hydrolase 123, N-terminal domain (domain)
This domain is found at the N-terminal end of protein members of the glycoside hydrolase family 123, including N-acetylgalactosaminidase from Clostridium perfringens. This enzyme removes specific terminal N-D-acetylgalactosamine from glycosphingolipids. This domain folds into a twisted beta-sandwich that consists of two 5-stranded beta-sheets, two small beta-strands and four small  alpha-helices.
Pfam PF06259: Alpha/beta hydrolase (family)
Members of this family are predicted to have an alpha/beta hydrolase fold. They contain a predicted Ser-His-Asp catalytic triad, in which the serine is likely to act as a nucleophile.
Wikipedia: The alpha/beta hydrolase superfamily is a superfamily of hydrolytic enzymes of widely differing phylogenetic origin and catalytic function that share a common fold. The core of each enzyme is an alpha/beta-sheet, containing 8 beta strands connected by 6 alpha helices. The enzymes are believed to have diverged from a common ancestor, retaining little obvious sequence similarity, but preserving the arrangement of the catalytic residues. All have a catalytic triad, the elements of which are borne on loops, which are the best-conserved structural features of the fold.
Pfam PF05109: Herpes virus envelope glycoprotein gp350, N-terminal A domain (domain)
This entry consists of the envelope glycoprotein gp350 from Epstein-Barr virus (also known as BLLF1 viral late glycoprotein). It is the most abundantly expressed glycoprotein in the viral envelope of Herpesviruses and is the major antigen responsible for  stimulating the production of neutralising antibodies in vivo. It is a 907 residues long gp350 polypeptide containing an 18-residue peptide at the C-terminal that is located inside the viral membrane, a membrane-spanning domain and a large N-terminal segment (860 residues) predicted to extend outside the viral membrane. The extreme N-terminal region (1-470) is sufficient to bind receptor CR2 (also known as CD21) and fold into three distinct domains (denoted as A, B and C) which organise into am "L-shape" structure. This is domain A, which is located in the middle, bridging domain B on one side and domain C on the other.
Pfam PF09486: Bacterial type III secretion protein (HrpB7) (coiled_coil)
This entry represents proteins encoded by genes which are found in type III secretion operons in a narrow range of species including Xanthomonas, Burkholderia and Ralstonia.
Pfam PF12114: Period protein 2/3C-terminal region (family)
This domain is found in eukaryotes. This domain is typically between 164 to 200 amino acids in length. This domain is found associated with [pfam:PF08447].
Pfam PF17379: Family of unknown function (DUF5400) (family)
This is a family of unknown function found in Methanobacteria and Methanococci. Members of this family are predicted to contain 4 trans-membrane regions.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF10545: Alcohol dehydrogenase transcription factor Myb/SANT-like (domain)
The myb/SANT-like domain in Adf-1 (MADF) is an approximately 80-amino-acid module that directs sequence specific DNA binding to a site consisting of multiple tri-nucleotide repeats. The MADF domain is found in one or more copies in eukaryotic and viral proteins and is often associated with the BESS domain. It is likely that the MADF domain is more closely related to the myb/SANT domain than it is to other HTH domains.
Pfam PF14012: Protein of unknown function (DUF4229) (family)
This family of integral membrane proteins is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are typically between 95 and 122 amino acids in length.
Pfam PF00397: WW domain (domain)
The WW domain is a protein module with two highly conserved tryptophans that binds proline-rich peptide motifs in vitro.
Wikipedia: The WW domain is a modular protein domain that mediates specific interactions with protein ligands. This domain is found in a number of unrelated signaling and structural proteins and may be repeated up to four times in some proteins. Apart from binding preferentially to proteins that are proline-rich, with particular proline-motifs, [AP]-P-P-[AP]-Y, some WW domains bind to phosphoserine- and phosphothreonine-containing motifs.
Pfam PF07282: Cas12f1-like, TNB domain (domain)
This entry represents a zinc ribbon domain known as the target nucleic acid-binding (TNB) domain of CRISPR-associated endodeoxyribonuclease Cas12f1 and similar sequences found in all domains in life. This domain is also found in bacterial transposases, including putative transposes described by [[pfam:PF01385]]. Some proteins containing this domain, in particular, Cas12m orthologues, albeit containing D-E-D, H-D-D and N-D-D motifs in the RuvC active site do not exhibit dsDNA nuclease activity, but efficiently bind to dsDNA targets in a PAM-dependent manner. The DNA-binding activity without cleavage seems is a common feature of the Cas12m effectors.
Pfam PF04322: Protein of unknown function (DUF473) (family)
Family of uncharacterised Archaeal 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 PF11625: Protein of unknown function (DUF3253) (family)
This bacterial family of proteins has no known function.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF02371: Transposase IS116/IS110/IS902 family (family)
Transposases are needed for efficient transposition of the insertion sequence or transposon DNA. This family includes transposases for IS116, IS110 and IS902. This region is often found with [pfam:PF01548]. The exact function of this region is uncertain. This family contains a HHH motif suggesting a DNA-binding function.