SII-SWORD/CoKE huggingface dataset:
Pfam PF08448: PAS fold (domain)
The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs. The PAS fold appears in archaea, eubacteria and eukarya. This domain is associated to signalling systems and works as a signal sensor domain. It recognises differently substituted aromatic hydrocarbons, oxygen, different dodecanoic acids, autoinducers, 3,5-dimethyl-pyrazin-2-ol and N-alanyl-aminoacetone (Matilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).
Wikipedia: A Per-Arnt-Sim (PAS) domain is a protein domain found in all kingdoms of life. Generally, the PAS domain acts as a molecular sensor, whereby small molecules and other proteins associate via binding of the PAS domain. Due to this sensing capability, the PAS domain has been shown as the key structural motif involved in protein-protein interactions of the circadian clock, and it is also a common motif found in signaling proteins, where it functions as a signaling sensor.
Pfam PF23147: NAD-dependent glutamate dehydrogenase, N-terminal domain (domain)
This domain is found towards the N terminus of yeast NAD-specific glutamate dehydrogenase (GDH2, also known as DHE2) and similar fungal proteins. GDH2 is involved in the degradation of glutamate to ammonia and alpha-ketoglutarate. This domain is predicted to adopt a globular structure composed of four alpha-helices.
Pfam PF14898: Domain of unknown function (DUF4491) (domain)
This family of proteins is found in bacteria. Proteins in this family are typically between 94 and 107 amino acids in length. There is a conserved EYY 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 PF14294: Domain of unknown function (DUF4372) (family)
This domain family is found in bacteria, and is approximately 80 amino acids in length. The family is found in association with [pfam:PF01609].  There is a single completely conserved residue G that may be functionally important.
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 PF08907: Domain of unknown function (DUF1853) (family)
This family of proteins are 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 PF04147: Nop14-like family (family)
Emg1 and Nop14 are novel proteins whose interaction is  required for the maturation of the 18S rRNA and for 40S  ribosome production.
Pfam PF00044: Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain (domain)
GAPDH is a tetrameric NAD-binding enzyme involved in glycolysis and glyconeogenesis. N-terminal domain is a Rossmann NAD(P) binding fold.
Wikipedia: Glyceraldehyde 3-phosphate dehydrogenase is an enzyme of about 37kDa that catalyzes the sixth step of glycolysis and thus serves to break down glucose for energy and carbon molecules. In addition to this long established metabolic function, GAPDH has recently been implicated in several non-metabolic processes, including transcription activation, initiation of apoptosis, ER-to-Golgi vesicle shuttling, and fast axonal, or axoplasmic transport. In sperm, a testis-specific isoenzyme GAPDHS is expressed.
Pfam PF04695: Pex14 N-terminal domain (domain)
Family of peroxisomal membrane anchor proteins which bind the PTS1 (peroxisomal targeting signal) receptor and are required for the import of PTS1-containing proteins into peroxisomes. Loss of functional Pex14p results in defects in both the PTS1 and PTS2-dependent import pathways. Deletion analysis of this conserved region implicates it in selective peroxisome degradation. In the majority of members this region is situated at the N-terminus of the protein.
Wikipedia: Peroxisomal membrane protein PEX14 is a protein that in humans is encoded by the PEX14 gene.
Pfam PF22522: Family of unknown function (DUF6998) (family)
This is a family of uncharacterised bacterial proteins. They share significant sequence similarity with PvuII endonucleases and are predicted to adopt similar structure. The predicted structures, however, do not suggest similarity in the active site architecture.
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 PF17599: Family of unknown function (DUF5495) (family)
This is a family of unknown function found in Myoviridae.
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 PF24701: Domain of unknown function (DUF7664) (domain)
This entry represents a small accessory domain found at the N-terminus of a small family of archaeal AGOG proteins. These proteins have 8-oxoguanine DNA glycosylase activity.
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 PF09814: HECT-like Ubiquitin-conjugating enzyme (E2)-binding (domain)
HECT_2 is a family of UbcH10-binding proteins.
Wikipedia: In molecular biology, the HECT domain is a protein domain found in ubiquitin-protein ligases. The name HECT comes from 'Homologous to the E6-AP Carboxyl Terminus'. Proteins containing this domain at the C terminus include ubiquitin-protein ligase, which regulates ubiquitination of CDC25. Ubiquitin-protein ligase accepts ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester, and then directly transfers the ubiquitin to targeted substrates. A cysteine residue is required for ubiquitin-thioester formation. Human thyroid receptor interacting protein 12 (TRIP12), which also contains this domain, is a component of an ATP-dependent multisubunit protein that interacts with the ligand binding domain of the thyroid hormone receptor. It could be an E3 ubiquitin-protein ligase. Human E6AP ubiquitin-protein ligase interacts with the E6 protein of the cancer-associated Human papillomavirus type 16 and Human papillomavirus type 18. The E6/E6-AP complex binds to and targets the p53 tumour-suppressor protein for ubiquitin-mediated proteolysis.
Pfam PF17060: Monopolar spindle protein 2 (family)
Is a fungal transmembrane protein which is part of the component of the spindle pole body (SPB) required for the insertion of the nascent SPB into the nuclear envelope and for the proper execution of spindle pole body (SPB) duplication. It seems that Mps2-Spc24 interaction may contribute to the localisation of Spc24 and other kinetochore components to the inner plaque of the SPB.
Pfam PF16505: P4 movement protein of Emaravirus, and the 30K superfamily (family)
Emaravirus_P4 is composed of movement proteins of the genus of negative-strand RNA viruses Emaravirus (related to the family Bunyaviridae), which infect plants. P4 is a movement protein of the 30K superfamily.
Pfam PF23250: Zinc finger domain of DNA polymerase-epsilon (domain)
This is a CysA-type zinc finger domain found in human DNA polymerase epsilon catalytic subunit A (DPOE, also known as POLE), the catalytic component of the DNA polymerase epsilon complex. It is often found associated with [pfam:PF22912].
Pfam PF17513: Family of unknown function (DUF5441) (family)
This is a family of unknown function found in Mastadenoviruses.
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 PF11525: Copper resistance protein K (family)
CopK is a periplasmic dimeric protein which is strongly up-regulated in the presence of copper, leading to a high periplasmic accumulation. CopK has two different binding sites for Cu(I), each with a different affinity for the metal. Binding of the first Cu(I) ion induces a conformational change of CopK which involves dissociation of the dimeric apo-protein. Binding of a second Cu(I) further increases the plasticity of the protein. CopK has features that are common with functionally related proteins such as a structure consisting of an all-beta fold and a methionine-rich Cu(I) binding site.
Pfam PF03935: Beta-glucan synthesis-associated protein SKN1/KRE6/Sbg1 (family)
This family consists of the beta-glucan synthesis-associated proteins KRE6, SKN1 and Sbg1. Beta1,6-Glucan is a key component of the yeast cell wall, interconnecting cell wall proteins, beta1,3-glucan, and chitin. SKN1 and KRE6 show similarities to glycoside hydrolase family 16 glycoside hydrolases, suggesting that they are glycosyl hydrolases or transglycosylases. They are related with the synthesis and anchorage of cell wall proteins of glucan polymers of the yeast cell wall, although they play redundant roles. SKN1, KRE6 and Sbg1 share the SKN1 domain which is conserved in SKN1 and KRE6 proteins of many fungal species. Sbg1 is an integral membrane protein essential for contractile-ring constriction and septum formation during cytokinesis, which interacts with the conserved beta-glucan synthase Bgs1 and regulates its protein levels ans localisation.
Pfam PF02580: D-Tyr-tRNA(Tyr) deacylase (family)
This family comprises of several D-Tyr-tRNA(Tyr) deacylase proteins.  Cell growth inhibition by several d-amino acids can be explained by an in vivo production of d-aminoacyl-tRNA molecules. Escherichia coli and yeast cells express an enzyme, d-Tyr-tRNA(Tyr) deacylase, capable of recycling such d-aminoacyl-tRNA molecules into free tRNA and d-amino acid. Accordingly, upon inactivation of the genes of the above deacylases, the toxicity of d-amino acids increases. Orthologues of the deacylase are found in many cells.The D-aminoacyl-tRNA deacylase (DTD) enzyme is homodimeric with two active sites located at the dimeric interface. Each active site carries an invariant Gly-cisPro dipeptide motif in each monomer. The interaction between the dipeptide motifs from each monomer ensures substrate stereospecificity. This family also includes a subclass of DTDs which is present in Chordata and harbors a Gly-transPro motif. The cis to trans switch is the key to Animal DTDs (ATD) gaining of L-chiral selectivity. This 'gain of function' through relaxation of substrate chiral specificity underlies ATD's capability of correcting the error in tRNA selection.
Pfam PF19287: Family of unknown function (DUF5910) (family)
This entry corresponds to a protein precursor of a peptide from the edible fungi Cordyceps militaris is said to induce apoptosis in mammalian cell lines in vitro.
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 PF19069: Family of unknown function (DUF5765) (family)
This is a family of proteins of unknown function found in viruses, which are thought to be membrane 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 PF07176: Alpha/beta hydrolase of unknown function (DUF1400) (family)
This family contains a number of hypothetical proteins of unknown function that seem to be specific to cyanobacteria. Members of this family have an alpha/beta hydrolase fold.
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 PF18341: PSA endolysin C-terminal cell wall binding domain (domain)
This is the C-terminal domain of bacteriophage PSA endolysin. The C-terminal domain is the cell wall-binding domain (CBD) which is composed of two structurally homologous subdomains. CBD comprises two copies of a beta-barrel-like folds, which are held together by means of swapped beta-strands. The observed structure of the CBD sub-domains from Listeriaphage endolysin (N-acetyl-muramoyl-l-alanine amidase), could be the result of either a gene duplication during evolution of the CBD or the pick-up of another functionally equivalent coding sequence, followed by swapping of the respective ancestral leading beta-strands.
Pfam PF12894: Anaphase-promoting complex subunit 4 WD40 domain (repeat)
Apc4 contains an N-terminal propeller-shaped WD40 domain.The N-terminus of Afi1 serves to stabilise the union between Apc4 and Apc5, both of which lie towards the bottom-front of the APC,
Pfam PF01191: RNA polymerase Rpb5, C-terminal domain (domain)
The assembly domain of Rpb5.  The archaeal equivalent to this domain is subunit H.  Subunit H lacks the N-terminal domain.
Pfam PF15312: Junctional sarcoplasmic reticulum protein (family)
JSRP, junctional sarcoplasmic reticulum protein 1, or junctional-face membrane protein of 45 kDa homologue, is a family of eukaryotic proteins. The family is to the junctional face membrane of the skeletal muscle sarcoplasmic reticulum (SR); it colocalises with its Ca2+-release channel (the ryanodine receptor), and interacts with calsequestrin and the skeletal-muscle dihydro-pyridine receptor Cav1. It is key for the functional expression of voltage-dependent Ca2+ channels.
Pfam PF03514: GRAS domain family (family)
Proteins in the GRAS (GAI, RGA, SCR) family are known as  major players in gibberellin (GA) signaling, which regulates various aspects of plant growth and development.  Mutation of the SCARECROW (SCR) gene results in a radial  pattern defect, loss of a ground tissue layer, in the root.      The PAT1 protein is involved in phytochrome A signal  transduction. A sequence, structure and evolutionary  analysis showed that the GRAS family emerged in bacteria  and belongs to the Rossmann-fold, AdoMET (SAM)-dependent  methyltransferase superfamily. All bacterial, and a subset  of plant GRAS proteins, are predicted to be active and function  as small-molecule methylases. Several plant GRAS proteins  lack one or more AdoMet (SAM)-binding residues while  preserving their substrate-binding residues. Although GRAS         proteins are implicated to function as transcriptional factors,  the above analysis suggests that they instead might either   modify or bind small molecules.
Pfam PF00600: Influenza non-structural protein (NS1) (family)
NS1 is a homodimeric RNA-binding protein that is required for viral replication. NS1 binds polyA tails of mRNA keeping them in the nucleus. NS1 inhibits pre-mRNA splicing by tightly binding to a specific stem-bulge of U6 snRNA.
Wikipedia: Influenza non-structural protein (NS1) is a homodimeric RNA-binding protein found in influenza virus that is required for viral replication. NS1 binds polyA tails of mRNA keeping them in the nucleus. NS1 inhibits pre-mRNA splicing by tightly binding to a specific stem-bulge of U6 snRNA.
Pfam PF03195: Lateral organ boundaries (LOB) domain (family)
The lateral organ boundaries (LOB) gene encodes a plant-specific protein of unknown function that is expressed at the adaxial base  of initiating lateral organs. The N-terminal of the LOB protein  contains an approximately 100-amino acid conserved domain  (the LOB domain) that is present in 42 other Arabidopsis thaliana  proteins as well as in proteins from a variety of other plant  species. The LOB domain contains conserved blocks of amino acids  that identify the LOB domain (LBD) gene family. In particular, a  conserved C-x(2)-C-x(6)-C-x(3)-C motif, which is the defining  feature of the LOB domain, is present in all LBD proteins.
Pfam PF10404: Rad4 beta-hairpin domain 2 (domain)
This short domain is found in the Rad4 protein. This domain binds to DNA.
Pfam PF08570: Protein of unknown function (DUF1761) (family)
Family of conserved fungal and bacterial membrane proteins with 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 PF19744: Family of unknown function (DUF6232) (family)
This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0000223) is described by MIBiG as an example of the following biosynthetic class, polyketide. It includes a member  from the  rabelomycin biosynthetic gene cluster from uncultured  bacterium BAC AB649/1850. This family appears to be  predominantly found in bacteria.
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 PF20331: Family of unknown function (DUF6626) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are approximately 110 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 PF07611: Protein of unknown function (DUF1574) (family)
A family of hypothetical proteins in Leptospira interrogans.
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 PF24384: TMEM62 Ig-like domain (domain)
This domain is found in the human Transmembrane protein 62 (TMEM62), uncharacterised At3g03305 protein from Arabidopsis thaliana and related eukaryotic proteins. TMEM62 has been identified as a potential therapeutic target to enhance survival from high-grade serous carcinomas. The domain represented by this entry is predicted to fold into a beta-sandwich with an Ig-like topology. It is frequently found associated with [pfam:PF00149].
Pfam PF19250: Family of unknown function (DUF5898) (family)
This is a family of uncharacterised proteins of unknown function found in viruses. This family is also found in eukaryotes and Bacteria.
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 PF21324: E3 ubiquitin-protein ligase SHPRH, second helical domain (domain)
This entry represents the second helical domain found towards the C-terminal end of the E3 ubiquitin-protein ligase SHPRH, a protein involved in DNA repair.
Pfam PF12262: Bacterial virulence factor lipase N-terminal (family)
This domain family is found in bacteria, and is typically between 258 and 271 amino acids in length. There are two conserved sequence motifs: DGT and DGWST. This family is the N-terminal region of bacterial virulence factor lipase. The N-terminal region contains a potential signalling sequence.