SII-SWORD/CoKE huggingface dataset:
Pfam PF00466: Ribosomal protein L10 (family)
This entry represents the large ribosomal subunit protein uL10 family, with includes ribosomal proteins found in bacteria, archaea and eukaryotes as well as in eukaryotic organelles such as chloroplast and mitochondria.

On the basis of sequence similarities the following prokaryotic and eukaryotic ribosomal proteins can be grouped:


 * Bacterial 50S ribosomal protein uL10 (old name L10);
 * Archaebacterial acidic ribosomal protein uL10 (old name P0 homologue (L10E));
 * Eukaryotic 60S ribosomal protein uL10 (old name P0 (L10E)).

Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites . About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits.

Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome .
Pfam PF22203: Surface cell antigen Sca2 helical repeat (repeat)
Sca2 (surface cell antigen 2) is the only bacterial protein known to promote both actin filament nucleation and profilin-dependent elongation, mimicking eukaryotic formins to assemble actin comet tails for Rickettsia motility. We show that Sca2's functional mimicry of formins is achieved through a unique mechanism. Unlike formins, Sca2 is monomeric, but has N- and C-terminal repeat domains (NRD and CRD) that interact with each other for processive barbed-end elongation. The crystal structure of NRD reveals a previously undescribed fold, consisting of helix-loop-helix repeats arranged into an overall crescent shape.
Pfam PF10272: Putative transmembrane protein precursor (family)
This is a family of proteins conserved from worms to humans. The proteins are purported to be transmembrane protein-precursors but the function is unknown.
Pfam PF20795: NTF2-like protein (DUF6841) (domain)
This entry represents a family of NTF2-like proteins of unknown function.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF04849: HAP1 N-terminal conserved region (family)
This family represents an N-terminal conserved region found in several huntingtin-associated protein 1 (HAP1) homologues. HAP1 binds to huntingtin in a polyglutamine repeat-length-dependent manner. However, its possible role in the pathogenesis of Huntington's disease is unclear. This family also includes a similar N-terminal conserved region from hypothetical protein products of ALS2CR3 genes found in the human juvenile amyotrophic lateral sclerosis critical region 2q33-2q34.
Pfam PF19432: DNAJ protein RME-8 N-terminal (domain)
DNAJ protein RME-8 (receptor-mediated endocytosis-8; Gvr2 in Arabidopsis) is involved in membrane trafficking through early endosomes and in the regulation of endosomal membrane tubulation. It regulates the dynamics of SNX1 (sorting nexin 1) on the endosomal membrane. It coordinates the function of the WASH complex and the retromer SNX dimer through its interaction with FAM21 subunit in WASH complex. This is the N-terminal domain of RME-8, which is required for membrane association and interaction with FAM21 tail domain. It contains critical residues mediating phosphatidylinositol 3-phosphate (PI(3)P) binding, required for its association with endosomes.
Pfam PF19083: Family of unknown function (DUF5774) (family)
This is a family of uncharacterised proteins of unknown function found in viruses.
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 PF21047: Maestro, HEAT repeats (repeat)
This entry represents HEAT repeats from maestro heat-like repeat-containing proteins. Maestro (Male-specific Transcription in the developing Reproductive Organs (MRO)) is expressed in human granulosa cumulus cells and in testicular germ cells. SPIF (also known as MRO2B) may play a role in the process of sperm capacitation.
Pfam PF22550: CesT_Tir_1 (family)
This entry represents a novel member of the CesT/Tir superfamily of chaperones found linked to the yjfJ family of PspA genes (Preprint https://doi.org/10.1101/2020.09.24.301986).
Pfam PF10577: FAM171A1/A2/B, N-terminal (domain)
This a domain found at the N-terminal of a family of proteins that includes FAM171A1/A2 and FAM171B. FAM171A1 is a type 1 transmembrane glycoprotein also known as astroprincin (APCN) due to abundant expression in astrocytes. APCN is also expressed in placental trophoblasts, skeletal and heart muscle, kidney and pancreas. APCN is involved in the regulation of the cytoskeletal dynamics, playing a role in actin stress fiber formation.
Pfam PF06950: Protein of unknown function (DUF1293) (family)
This family consists of several bacterial and phage proteins of around 115 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 PF15444: Transmembrane protein 247 (family)
This family of transmembrane proteins is found in eukaryotes. Proteins in this family are typically between 197 and 222 amino acids in length. The function of this family is unknown.
Pfam PF22836: Testis-expressed protein 13B, C-terminal (domain)
This domain is found at the C-terminal end of human Testis -expressed protein 13B.
Pfam PF10748: DNA utilization proteins HofP (family)
This family includes the Escherischia coli protein HofP, one of eight genes shown to be required for the utilization of extracellular DNA as a nutrient source in starving conditions, allowing DNA to be the sole source for carbon and energy. Proteins in this entry appear are found only in Enterobacteriaceae.
Pfam PF01941: S-adenosylmethionine synthetase (AdoMet synthetase) (family)
This family consists of several archaebacterial S-adenosylmethionine synthetase C(AdoMet synthetase or MAT) (EC 2.5.1.6). S-Adenosylmethionine (AdoMet) occupies a central role in the metabolism of all cells. The biological roles of AdoMet include acting as the primary methyl group donor, as a precursor to the polyamines, and as a progenitor of a 5'-deoxyadenosyl radical. S-Adenosylmethionine synthetase catalyses the only known route of AdoMet biosynthesis. The synthetic process occurs in a unique reaction in which the complete triphosphate chain is displaced from ATP and a sulfonium ion formed. MATs from various organisms contain ~400-amino acid polypeptide chains.
Pfam PF19462: Family of unknown function (DUF5999) (family)
This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0000703) is described by MIBiG as an example of the following biosynthetic class, saccharide. This family includes a  protein from the kanamycin biosynthetic gene cluster from  Streptomyces kanamyceticus. This family appears to be predominantly found in Actinobacteria.
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 PF12404: Peptidase (family)
This domain family is found in bacteria, and is approximately 80 amino acids in length. The family is found in association with [pfam:PF00883]. There is a conserved WAF sequence motif.
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 PF17922: Tetracyclin repressor-like, C-terminal domain (domain)
TetR family regulators are involved in the transcriptional control of multidrug efflux pumps, pathways for the biosynthesis of antibiotics, response to osmotic stress and toxic chemicals, control of catabolic pathways, differentiation processes, and pathogenicity. The TetR proteins identified in overm ultiple genera of bacteria and archaea share a common helix-turn-helix (HTH) structure in their DNA-binding domain. However, TetR proteins can work in different ways: they can bind a target operator directly to exert their effect (e.g. TetR binds Tet(A) gene to repress it in the absence of tetracycline), or they can be involved in complex regulatory cascades in which the TetR protein can either be modulated by another regulator or TetR can trigger the cellular response. This entry represents the C-terminal domain present in Yfir transcription regulator proteins found in Bacillus subtilus. TetR regulates the expression of the membrane-associated tetracycline resistance protein, TetA, which exports the tetracycline antibiotic out of the cell before it can attach to the ribosomes and inhibit protein synthesis. TetR blocks transcription from the genes encoding both TetA and TetR in the absence of antibiotic. The C-terminal domain is multi-helical and is interlocked in the homodimer with the helix-turn-helix (HTH) DNA-binding domain.
Pfam PF09000: Cytotoxic (domain)
The cytotoxic domain confers cytotoxic activity to proteins, enabling the formation of nucleolytic breaks in 16S ribosomal RNA. The structure of the domain reveals a highly twisted central beta-sheet elaborated with a short N-terminal alpha-helix.
Pfam PF15031: Domain of unknown function (DUF4528) (family)
This family of proteins is found in eukaryotes. Proteins in this family are typically between 95 and 154 amino acids in length. This family includes Human C15orf61.
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 PF05293: African swine fever virus (ASFV) L11L protein (family)
L11L is an integral membrane protein of the African swine fever virus (ASFV) which is expressed late in the virus replication cycle. The protein is thought to be non-essential for growth in vitro and for virus virulence in domestic swine.
Pfam PF20086: Family of unknown function (DUF6478) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are approximately 260 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 PF00792: Phosphoinositide 3-kinase C2 (domain)
Phosphoinositide 3-kinase region postulated to contain a C2 domain. Outlier of [pfam:PF00168] family.
Wikipedia: A C2 domain is a protein structural domain involved in targeting proteins to cell membranes. The typical version (PKC-C2) has a beta-sandwich composed of 8 β-strands that co-ordinates two or three calcium ions, which bind in a cavity formed by the first and final loops of the domain, on the membrane binding face. Many other C2 domain families don't have calcium binding activity.
Pfam PF08771: FKBP12-rapamycin binding domain (domain)
The macrolide antibiotic rapamycin and the cytosol protein FKBP12  can form a complex which specifically inhibits the TORC1 complex,  leading to growth arrest. The FKBP12-rapamycin complex interferes  with TORC1 function by binding to the FKBP12-rapamycin binding domain (FRB) of the TOR proteins. This entry represents the FRB  domain.
Pfam PF20257: SAM hydroxide adenosyltransferase C-terminal domain (domain)
This is a family of proteins, previously known as DUF62, found in archaebacteria and bacteria. The structure of proteins in this family is similar to that of a bacterial fluorinating enzyme. S-adenosyl-l-methionine hydroxide adenosyltransferases utilises a rigorously conserved amino acid side chain triad (Asp-Arg-His) which may have a role in activating water to hydroxide ion. This family used to be known as DUF62. This entry represents the C-terminal domain of these enzymes.
Pfam PF18014: Acetyltransferase (GNAT) domain (domain)
This entry represents a likely acetyltransferase enzyme that is related to [pfam:PF06852].
Wikipedia: An acetyltransferase is any of a class of transferase enzymes that transfers an acetyl group in a reaction called acetylation. In biological organisms, post-translational modification of a protein via acetylation can profoundly transform its functionality by altering various properties like hydrophobicity, solubility, and surface attributes. These alterations have the potential to influence the protein's conformation and its interactions with substrates, cofactors, and other macromolecules.
Pfam PF04074: YhcH/YjgK/YiaL (domain)
This family consists of bacterial proteins. YjgK (TabA) influences biofilm formation by toxin-antitoxin systems. Another member of this family, YhcH, is a possible sugar isomerase of sialic acid catabolism.
Pfam PF16064: Domain of unknown function (DUF4806) (family)
This presumed domain is functionally uncharacterised. This domain family is found in eukaryotes, and is 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 PF12612: Tubulin folding cofactor D C terminal (family)
This domain family is found in eukaryotes, and is typically between 182 and 199 amino acids in length. The family is found in association with [pfam:PF02985]. There is a single completely conserved residue R that may be functionally important. Tubulin folding cofactor D does not co-polymerise with microtubules either in vivo or in vitro, but instead modulates microtubule dynamics by sequestering beta-tubulin from GTP-bound alphabeta-heterodimers in microtubules.
Pfam PF12594: Protein of unknown function (DUF3764) (family)
This family of proteins is found in bacteria. Proteins in this family are typically between 89 and 101 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 PF08621: RPAP1-like, N-terminal (family)
Inhibition of RPAP1 synthesis in Saccharomyces cerevisiae results in changes in global gene expression that are similar to those caused by the loss of the RNAPII subunit Rpb11. This entry represents the N-terminal region of RPAP-1 that is conserved from yeast to humans.
Pfam PF20768: All-beta domain in DNA topoisomerase VI alpha subunit (domain)
In all organisms, type II DNA topoisomerases are essential for untangling chromosomal DNA. The archaeal type II protein is termed DNA topoisomerase VI. This entry represents an all beta domain found in these proteins.
Pfam PF01071: Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain (domain)
Phosphoribosylglycinamide synthetase catalyses the second step in  the de novo biosynthesis of purine. The reaction catalysed by Phosphoribosylglycinamide synthetase is the ATP- dependent addition of 5-phosphoribosylamine to glycine to form 5'phosphoribosylglycinamide. This domain is related to the ATP-grasp domain of biotin  carboxylase/carbamoyl phosphate synthetase (see [pfam:PF02786]).
Pfam PF21174: D-glucuronyl C5-epimerase, beta-sandwich domain (domain)
This domain is found centrally in D-glucuronyl C5-epimerase from humans (Glce) and similar proteins involved in glycan metabolism and heparin biosynthesis in animals. Glce is essential for the reversible epimerisation of D-glucuronic acid (GlcA) into L-iduronic acid (IdoA), contributing to generate functional protein-binding motifs to ensure polymer function. This protein consists of three intertwined domains. This entry represents a classical beta-sandwich domain that consists predominantly of a convex four-stranded beta- -sheet and a concave seven-stranded beta-sheet. It is inserted between two of the helices of the C-terminal alpha-barrel domain (whose most C-terminal region is represented by [pfam:PF06662]).
Pfam PF21053: Biogenesis factor required for ATP synthase 1, C-terminal domain (domain)
This domain is predominantly found at the C-terminal end of proteins from cyanobacteria and plants, including Biogenesis factor required for ATP synthase 1 (BFA1, [swissprot:F4J1U2]) from Arabidopsis thaliana. BFA1 promotes the assembly of the CF1 subcomplex of the chloroplast ATP synthase by specifically interacting with the gamma and beta subunits. This domain consists of ten beta-sheets and one alpha- helix forming a typical beta-barrel, which locates perpendicularly to [pfam:PF12204].
Pfam PF20500: DNA-PKcs, N-terminal (repeat)
This entry represents the N-terminal domain of DNA-dependent protein kinase catalytic subunit (DNA-PKcs), which is arranged in four supersecondary alpha-helical structures, N1 to N4, that resemble HEAT repeats. Therefore, this domain is also known as N-HEAT. This domain likely mediates DNA binding and, together with the Circular Cradle, forms a ring through which Ku70/80 may present DNA for repair. DNA-PKcs is involved in DNA nonhomologous end joining (NHEJ), required for double-strand break (DSB) repair. It is recruited by Ku70/80 heterodimer to DNA ends.
Pfam PF07351: Protein of unknown function (DUF1480) (family)
This family consists of several hypothetical Enterobacterial proteins of around 80 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 PF20658: Malate synthase G, alpha-beta insertion domain (domain)
Malate synthase (MS) catalyses the aldol condensation of glyoxylate with acetyl-CoA to form malate as part of the second step of the glyoxylate bypass and an alternative to the tricarboxylic acid cycle in bacteria, fungi and plants. There have been identified two isoforms, A and G (MSA and MSG, respectively) that differ in size and is attributed to an inserted alpha/beta domain in MSG that may have regulatory function. Members of the isoform G family are only found in bacteria. This entry represents the alpha/beta insertion domain from MSG, which buttressed one side of the TIM-barrel domain.
Pfam PF21327: GspA, peptidase C39-like domain (domain)
This entry represents a domain of the type II secretion system protein GspA from E. coli, which has a papain-like fold similar to that in peptidase C39 family.
Pfam PF03832: WSK motif (conserved_site)
This short motif is names after three conserved residues found in a WXSXK motif in protein kinase A anchoring proteins.
Pfam PF04715: Anthranilate synthase component I, N terminal region (domain)
Anthranilate synthase ([ec:4.1.3.27]) catalyses the first step in the  biosynthesis of tryptophan.  Component I catalyses the formation of  anthranilate using ammonia and chorismate.  The catalytic site lies in the adjacent region, described in the chorismate binding enzyme family  ([pfam:PF00425]). This region is involved in feedback inhibition by tryptophan.  This family also contains a region of Para-aminobenzoate synthase component I (EC 4.1.3.-).