SII-SWORD/CoKE huggingface dataset:
Pfam PF19759: Family of unknown function (DUF6246) (family)
This family of proteins found in bacteria and viruses is functionally uncharacterised. Proteins in this family are typically between 205 and 235 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 PF17662: Family of unknown function (DUF5524) (family)
This is a family of unknown function found in Metazoa.
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 PF19966: vWA-MoxR associated protein middle region (VMAP-M) 4 (family)
Highly variable central region of the vWA-MoxR associated protein (VMAP) of the classical ternary system (vWA-MoxR-VMAP) in NTP-dependent conflict systems. VMAP-Ms may be involved in sensing of invasive entities.
Pfam PF00078: Reverse transcriptase (RNA-dependent DNA polymerase) (domain)
A reverse transcriptase gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. Reverse transcriptases occur in a variety of mobile elements, including retrotransposons, retroviruses, group II introns, bacterial msDNAs, hepadnaviruses, and caulimoviruses.
Wikipedia: A reverse transcriptase (RT) is an enzyme used to convert RNA genome to DNA, a process termed reverse transcription. Reverse transcriptases are used by viruses such as HIV, COVID-19, and hepatitis B to replicate their genomes, by retrotransposon mobile genetic elements to proliferate within the host genome, and by eukaryotic cells to extend the telomeres at the ends of their linear chromosomes. Contrary to a widely held belief, the process does not violate the flows of genetic information as described by the classical central dogma, as transfers of information from RNA to DNA are explicitly held possible.
Pfam PF19998: FtsH ternary system domain X1 (domain)
Uncharacterized domain found in the FtsH ternary system, a class of NTP-dependent biological conflict systems.
Pfam PF13629: Pilus formation protein N terminal region (domain)
This domain is found N-terminal in putative pilus formation proteins of the type II/III secretion system.
Pfam PF07712: Stress up-regulated Nod 19 (domain)
This family of plant proteins have been implicated in nodule development in the legume Medicago truncatula. MtN-19 was shown by Northern blot to be induced during nodulation.
Pfam PF20999: Domain of unknown function (DUF4438), C-terminal (domain)
This is the C-terminal domain of TM_1086 which consists of a 3-layer sandwich.
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 PF24552: Defensin-like (domain)
This entry includes defensin-like proteins from plants which may adopt a scorpion toxin-like fold.
Pfam PF15704: Mitochondrial ATP synthase subunit (family)
This plant mitochondrial ATP synthase subunit may the the equivalent of the mitochondrial ATP synthase d subunit.
Wikipedia: ATP synthase is an enzyme that catalyzes the formation of the energy storage molecule adenosine triphosphate (ATP) using adenosine diphosphate (ADP) and inorganic phosphate (Pi). ATP synthase is a molecular machine. The overall reaction catalyzed by ATP synthase is:ADP + Pi + 2H+out ⇌ ATP + H2O + 2H+in
Pfam PF06372: Gemin6 Sm-like domain (domain)
This entry represents the N-terminal Sm-like domain from mammalian Gemin6 proteins. The exact function of Gemin6 is unknown but it has been found to form part of the [pfam:PF06003] complex. The SMN complex plays a key role in the biogenesis of spliceosomal small nuclear ribonucleoproteins (snRNPs) and other ribonucleoprotein particles.
Pfam PF04768: NAT, N-acetyltransferase, of N-acetylglutamate synthase (family)
This is the C-terminal NAT or N-acetyltransferase domain of bifunctional N-acetylglutamate synthase/kinases. It catalyzes the first two steps in arginine biosynthesis. This domain contains the putative NAGS - N-acetylglutamate synthase - active site. It is found at the C-terminus of Neurospora crassa acetylglutamate synthase - amino-acid acetyltransferase, EC: 2.3.1.1.  It is also found C-terminal to the amino acid kinase region ([pfam:PF00696]) in some fungal acetylglutamate kinase enzymes.  it stabilises the yeast NAGK, N-acetyl-L-glutamate kinase, slows catalysis and modulates feed-back inhibition by arginine. This domain is found to be the N-acetyltransferase (NAT) domain, and it has a typical GCN5-related NAT fold and a site that catalyzes NAG synthesis which is located >25 Angstrom away from the L-arginine binding site in the N-temrinal domain [pfam:PF00696].
Pfam PF08989: Domain of unknown function (DUF1896) (domain)
This domain is found in a set of hypothetical bacterial 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 PF03687: Uncharacterised protein family (UPF0164) (family)
This family of uncharacterised proteins are only found in Treponema pallidum. These proteins belong to the membrane beta barrel superfamily.
Pfam PF13139: Domain of unknown function (DUF3981) (family)
This presumed domain is functionally uncharacterised. This domain family is found in bacteria, and is approximately 110 amino acids in length.
Pfam PF14118: YfzA-like protein (family)
The YfzA-like protein family includes the B. subtilis YfzA protein [swissprot:C0H3X6] which is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are approximately 100 amino acids in length.
Pfam PF05066: HB1, ASXL, restriction endonuclease HTH domain (family)
A winged helix-turn-helix domain present in the plant HB1, vertebrate ASXL, the H. pylori restriction endonuclease HpyAIII(HgrA), the RNA polymerase delta subunit(RpoE) of Gram positive bacteria and several restriction endonucleases. The domain is distinguished by the presence of a conserved one-turn helix between helix-3 and the preceding conserved turn. Its diverse architectures in eukaryotic species with extensive gene body methylation is suggestive of a chromatin function. The genetic interaction of the HARE-HTH containing ASXL with the methyl cytosine hydroxylating Tet2 protein is suggestive of a role for the domain in discriminating sequences with DNA modifications such as  hmC. Bacterial versions include fusions to diverse restriction  endonucleases, and a DNA glycosylase where it may play a similar  role in detecting modified DNA. Certain bacterial version of the  HARE-HTH domain show fusions to the helix-hairpin-helix domain of  the RNA polymerase alpha subunit and the HTH domains found in  regions 3 and 4 of the sigma factors. These versions are  predicted to function as a novel inhibitor of the binding of RNA  polymerase to transcription start sites, similar to the Bacillus delta protein.
Pfam PF22278: Family of unknown function (DUF6958) (family)
This family is found in uncharacterised bacterial proteins. They share sequence similarity with several HTH winged helix domains, one of which Zinc uptake regulation protein FurB.
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 PF02812: Glu/Leu/Phe/Val dehydrogenase, dimerisation domain (domain)
Glutamate, leucine, phenylalanine, valine and tryptophan dehydrogenases are structurally and functionally related. They contain a Gly-rich region containing a conserved Lys residue, which has been implicated in the catalytic activity, in each case a reversible oxidative deamination reaction.

Glutamate dehydrogenases (1.4.1.2, 1.4.1.3, and 1.4.1.4) (GluDH) are enzymes that catalyse the NAD-and/or NADP-dependent reversible deamination of L-glutamate into alpha-ketoglutarate . GluDH isozymes are generally involved with either ammonia assimilation or glutamate catabolism. Two separate enzymes are present in yeasts: the NADP-dependent enzyme, which catalyses the amination of alpha-ketoglutarate to L-glutamate; and the NAD-dependent enzyme, which catalyses the reverse reaction  -this form links the L-amino acids with the Krebs cycle, which provides a major pathway for metabolic interconversion of alpha-amino acids and alpha-keto acids . In rice, glutamate dehydrogenase 3 is mitochondrial.

Leucine dehydrogenase (1.4.1.9) (LeuDH) is a NAD-dependent enzyme that catalyses the reversible deamination of leucine and several other aliphatic amino acids to their keto analogues . Each subunit of this octameric enzyme from Bacillus sphaericus contains 364 amino acids and folds into two domains, separated by a deep cleft. The nicotinamide ring of the NAD+ cofactor binds deep in this cleft, which is thought to close during the hydride transfer step of the catalytic cycle.

Phenylalanine dehydrogenase (1.4.1.20) (PheDH) is na NAD-dependent enzyme that catalyses the reversible deamidation of L-phenylalanine into phenyl-pyruvate .

Valine dehydrogenase (1.4.1.8) (ValDH) is an NADP-dependent enzyme that catalyses the reversible deamidation of L-valine into 3-methyl-2-oxobutanoate .

L-tryptophan dehydrogenase catalyses the reversible oxidative deamination of L-tryptophan to indole-3-pyruvate in the presence of NAD+ .
This entry represents the dimerisation region of these enzymes.
Wikipedia: In molecular biology, the ELFV dehydrogenase family of enzymes include glutamate, leucine, phenylalanine and valine dehydrogenases. These enzymes are structurally and functionally related. They contain a Gly-rich region containing a conserved Lys residue, which has been implicated in the catalytic activity, in each case a reversible oxidative deamination reaction.
Pfam PF19460: Family of unknown function (DUF5997) (family)
This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0001814) is described by MIBiG as an example of the following biosynthetic class, NRP (non-ribosomal peptide). This  family includes a protein from the  ulleungmycin biosynthetic gene  cluster from Streptomyces sp. KCB13F003.
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 PF24148: ApeC, platyhelminthes (domain)
This entry represents a divergent ApeC domain found in a group of proteins mainly from flatworms that also contain [pfam:PF16977]. Its specific function is unknown. This domain is predicted to show an alpha-beta configuration.
Pfam PF07486: Cell Wall Hydrolase (family)
These enzymes have been implicated in cell wall hydrolysis, most extensively in Bacillus subtilis. For instance [swissprot:P50739] is expressed during sporulation as an inactive form and then deposited on the cell outer cortex. During germination the the enzyme is activated and hydrolyses the cortex(). A similar role is carried out by the partially redundant [swissprot:P42249] (). It is not clear  whether these enzymes are amidases or peptidases.
Pfam PF09052: SipA N-terminal domain (domain)
Salmonella invasion protein A is an actin-binding protein that contributes to host cytoskeletal rearrangements by stimulating actin polymerisation and counteracting F-actin destabilising proteins. Members of this family possess an all-helical fold consisting of eight alpha-helices arranged so that six long, amphipathic helices form a compact fold that surrounds a final, predominantly hydrophobic helix in the middle of the molecule.
Pfam PF03995: Peptidase inhibitor family I36 (domain)
This domain is currently only found in a small set of S. coelicolor secreted proteins. There are four conserved cysteines that probably form two disulphide bonds. Proteins 2SCK31.15C ([swissprot:Q9ADK5]) and SCO3675 ([swissprot:Q9X8V7]) also have probable beta-propellers at their C-termini. This family includes [swissprot:P01077] a known peptidase inhibitor of known structure. This protein has a crystallin like fold [pfam:PF00030] and is distantly related by sequence.  It is not known whether other members of this family are peptidase inhibitors.
Wikipedia: In biology and biochemistry, protease inhibitors, or antiproteases, are molecules that inhibit the function of proteases. Many naturally occurring protease inhibitors are proteins.
Pfam PF20910: TAR DNA-binding protein 43, C-terminal (disordered)
TDP-43 is a member of the heterogeneous nuclear ribonucleoprotein (hnRNP) family, which is involved in RNA processing and in stress granule response. It is linked to the pathogenesis of amyotrophic lateral sclerosis (ALS) and frontotemporal dementia (FTD). It is the main component of intraneuronal inclusion bodies (IBs), a pathological hallmark of ALS. This entry represents the C-terminal Gly-rich region of TAR DNA-binding protein 43 (TDP-43), which is an intrinsically disordered prion-like domain, capable of assemble into dynamic oligomers rich in beta-sheet structures, being responsible of TDP-43 aggregation.
Pfam PF23992: Phage Pam3 gp32-like protein (domain)
This entry represents a family of uncharacterised proteins from phage that includes the Pam3 phage gp32 protein. Structure prediction shows that the protein is composed of a small globular domain. This protein forms a confident dimer according to structure prediction.
Pfam PF02479: Herpesvirus immediate early protein (family)
This regulatory protein is expressed from an immediate early gene in the cell cycle of herpesvirus. The protein is known by various names  including IE-68, US1, ICP22 and IR4.
Pfam PF20796: PD-(D/E)XK nuclease superfamily (domain)
This entry contains a family of uncharacterised proteins. Structure prediction suggests it is likely to be an endonuclease enzyme related to the PD-(D/E)XK nuclease superfamily.
Pfam PF09872: Uncharacterized protein conserved in archaea (DUF2099) (family)
This domain, found in various hypothetical prokaryotic proteins, has no known function.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF21511: SidD, catalytic domain (domain)
SidD from Legionella pneumophila is a virulence effector that plays a role in hijacking the host vesicular trafficking by recruiting the small guanosine triphosphatase (GTPase) Rab1 to the cytosolic face of the Legionella-containing vacuole (LCVs). This entry represents the catalytic domain.
Pfam PF24011: Family of unknown function (DUF7325) (family)
This entry represents a family of uncharacterised phage proteins that are glycine rich.
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 PF05808: Podoplanin (family)
This family consists of several mammalian podoplanin like proteins which are thought to control specifically the unique shape of podocytes.
Pfam PF11528: Protein of unknown function (DUF3224) (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 PF17341: Family of unknown function (DUF5371) (family)
This is a family of unknown function found in Euryarchaeota.
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 PF24580: Domain of unknown function (DUF7607) (domain)
This domain is found in uncharacterised proteins mainly from fungi. It is predicted to fold into an alpha-helical structure composed of three 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 PF08224: Domain of unknown function (DUF1719) (domain)
This is a domain of unknown function.  It may have a role in ATPase activation.
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 PF16189: Creatinase/Prolidase N-terminal domain (domain)
Wikipedia: In enzymology, a creatinase (EC 3.5.3.3) is an enzyme that catalyzes the chemical reactioncreatine + H2O  sarcosine + urea
Pfam PF08010: Bacteriophage protein GP30.3 (family)
Proteins in this family are bacteriophage GP30.3 proteins. Their  function is poorly characterised.
Pfam PF19072: Family of unknown function (DUF5768) (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 PF10048: Predicted integral membrane protein (DUF2282) (family)
Members of this family of hypothetical bacterial proteins and putative signal peptide proteins have 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 PF15849: Domain of unknown function (DUF4722) (family)
This family of proteins is found in vertebrates. Proteins in this family are typically between 86 and 203 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 PF22379: MCM10 OB-fold (domain)
MCM10 is an essential eukaryotic DNA replication protein required for assembly and progression of the replication fork. This entry represents the OB fold domain from the internal domain (ID) which also contains a C3H-type zinc finger ([pfam:PF09329]).
Pfam PF09600: Cyd operon protein YbgE (Cyd_oper_YbgE) (family)
This entry describes a small protein of unknown function, about 100 amino acids in length, essentially always found in an operon with CydAB, subunits of the cytochrome d terminal oxidase. It appears to be an integral membrane protein. It is found so far only in the Proteobacteria.
Pfam PF22558: Restriction Endonuclease associating with ARP (domain)
This entry represents a rapidly evolving Restriction Endonuclease (REase) domain observed in host systems predicted to counter the action of viral ribosylating toxins, associated with ARG and Rhodanese-Phosphatase domain (ARP). Potentially functions as an effector in these systems.
Pfam PF24298: Domain of unknown function (DUF7482) (repeat)
This entry includes a group of uncharacterised sequences from bacteria and archaea, which, according to structure predictions, they may have a novel repeat fold. They may consist of 5-6 antiparallel beta-strands decorated with short alpha-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 PF17723: Ribbon-Helix-Helix transcriptional regulator family (domain)
This family of proteins are likely to be transcriptional regulators that have an N-terminal ribbon-helix-helix domain. Although some members of the family are annotated as CopG, this family does not include that protein.