SII-SWORD/CoKE huggingface dataset:
Pfam PF24131: Family of unknown function (DUF7398) (family)
This entry describes an uncharacterized protein found in several bacteriophages that infect Bacillus species. The protein ranges in length from 158 to 189 amino acids. It is found in the virions of phages from the Bastillevirinae subfamily of the Herelleviridae family. Structure prediction suggests the proteins are composed of a bundle of five 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 PF12096: Protein of unknown function (DUF3572) (family)
This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are about 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 PF13362: Toprim domain (domain)
The toprim domain is found in a wide variety of enzymes involved in nucleic acid manipulation.
Pfam PF18140: Propionyl-coenzyme A carboxylase BT domain (domain)
This domain is found in Propionyl-coenzyme A carboxylase (PCC), present in Roseobacter denitrificans. PCC is a mitochondrial biotin-dependent enzyme that is essential for the catabolism of certain amino acids, cholesterol, and fatty acids with an odd number of carbon atoms. Since this domain mediates biotin carboxylase-carboxyltransferase interactions it is referred to as the BT domain. The BT domain is located between biotin carboxylase and the biotin carboxyl carrier protein domains. The BT domain shares some structural similarity with the pyruvate carboxylase tetramerization domain of pyruvate carboxylase.
Pfam PF24779: UTP23 sensor motif (conserved_site)
This entry represents the sensor motif found in the UTP23 protein, which is involved in ribosome biogenesis. The sensor motif is located in the C-terminal region of UTP23 and recognizes the snR30-ES6 three-way junction in the 18S rRNA. This interaction is crucial for the early stages of 90S pre-ribosome assembly and 18S rRNA processing.  The sensor motif is highly conserved across eukaryotes and is essential for UTP23 function. Deletion of this motif results in a substantial growth defect, highlighting its importance in ribosome biogenesis.
Pfam PF14301: Domain of unknown function (DUF4376) (family)
This domain family is found in bacteria and viruses, and is 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 PF00999: Sodium/hydrogen exchanger, transmembrane (domain)
Na/H antiporters are key transporters in maintaining the pH of actively metabolising cells. The molecular mechanisms of antiport are unclear. These antiporters contain 10-12 transmembrane regions (M) at the amino-terminus and a large cytoplasmic region at the carboxyl terminus. The transmembrane regions M3-M12 share identity with other members of the family. The M6 and M7 regions are highly conserved. Thus, this is thought to be the region that is involved in the transport of sodium and hydrogen ions. The cytoplasmic region has little similarity throughout the family. This entry represents the transmembrane region.
Wikipedia: The Monovalent Cation:Proton Antiporter-1 (CPA1) Family (TC# 2.A.36) is a large family of proteins derived from Gram-positive and Gram-negative bacteria, blue-green bacteria, archaea, yeast, plants and animals. The CPA1 family belongs to the VIC superfamily. Transporters from eukaryotes have been functionally characterized to catalyze Na+:H+ exchange. Their primary physiological functions are thought to be in (1) cytoplasmic pH regulation, extruding the H+ generated during metabolism, and (2) salt tolerance (in plants), due to Na+ uptake into vacuoles. Bacterial homologues have also been found to facilitate Na+:H+ antiport, but some also catalyze Li+:H+ antiport or Ca2+:H+ antiport under certain conditions.
Pfam PF16665: Unstructured region on nuclear receptor coactivator protein (disordered)
NCOA_u2 is a region of natively unstructured but highly conserved sequence found on higher eukaryote nuclear receptor coactivator proteins. It lies between a PAS domain, [pfam:PF14598] and a steroid receptor coactivator domain, [pfam:PF08832].  The function is not known.
Pfam PF06835: Lipopolysaccharide-assembly, LptC-related (family)
This family consists of several related groups of proteins one of which is the LptC family. LptC is involved in lipopolysaccharide-assembly on the outer membrane of Gram-negative organisms. The lipopolysaccharide component of the outer bacterial membrane is transported form its source of origin to the outer membrane by a set of proteins constituting a transport machinery that is made up of LptA, LptB, LptC, LptD, LptE. LptC is located on the inner membrane side of the intermembrane space.
Wikipedia: The bacterial outer membrane is found in gram-negative bacteria. Gram-negative bacteria form two lipid bilayers in their cell envelopes - an inner membrane (IM) that encapsulates the cytoplasm, and an outer membrane (OM) that encapsulates the periplasm.
Pfam PF21797: Cyclin-T2-like, C-terminal domain (domain)
This domain is found at the C-terminal end of human Cyclin-T2 (CycT2) and similar animal sequences. CycT2 is the regulatory subunit of the cyclin-dependent kinase pair (CDK9/cyclin T) complex, also called positive transcription elongation factor B (P-TEFB). This domain adopts s cyclin box fold consisting of five helices and a short C-terminal helix.
Pfam PF09995: ER-bound oxygenase mpaB/B'/Rubber oxygenase, catalytic domain (domain)
This is the catalytic domain found in the endoplasmic reticulum (ER) -bound oxygenases mpaB' (MPAB2) and mpaB (MPAB) from Penicillium roqueforti and Penicillium brevicompactum and in the rubber oxygenase (Lcp) from Streptomyces sp., which contains highly conserved arginine and histidine residues. Structural analysis from Lcp revealed that Arg164, Thr168 and His198 are crucial active site residues. The mpaB and mpaB' are part of the gene cluster that mediates the biosynthesis of mycophenolic acid (MPA). Lcp (Latex clearing proteins) is a rubber oxygenase that catalyses the extracellular cleavage of poly (cis-1,4-isoprene). This domain is also present in uncharacterised proteins from Mycobacterium sp. and hypothetical proteins, mainly from bacteria and fungi.
Pfam PF13068: Protein of unknown function (DUF3932) (domain)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are approximately 80 amino acids in length.
Pfam PF22225: RavZ C-terminal PI3P-binding domain (domain)
The intracellular pathogen L. pneumophila interferes with autophagy by delivering an effector protein, RavZ, into the host cytosol. This effector protein cleaves membrane-conjugated Atg8/LC3 proteins from pre-autophagosomal structures. RavZ is a two domain protein consisting of an N-terminal catalytic domain and a C-terminal phosphatidylinositol 3-phosphate (PI3P)-binding domain. RavZ targets the autophagosome via the PI3P-binding domain.
Pfam PF12744: Autophagy protein Atg19, Atg8-binding (domain)
Autophagy is generally known as a process involved in the degradation of bulk cytoplasmic components that are non-specifically sequestered into an autophagosome, where they are sequestered into double-membrane vesicles and delivered to the degradative organelle, the lysosome/vacuole, for breakdown and eventual recycling of the resulting macromolecules. In contrast to autophagy, however, the Cvt pathway is a highly selective process that involves the sequestration of at least two specific cargos that are resident vacuolar hydrolases, aminopeptidase I (Ape1) and alpha-mannosidase (Ams1). These proteins are sequestered within a double-membrane vesicle, termed a Cvt vesicle. The Cvt vesicle is fairly consistent in size, and is much smaller than the autophagosome, being 140-160 nm in diameter. The prApe1 is sequestered within either Cvt vesicles or autophagosomes, depending on the nutrient conditions, and delivered to the vacuole. Autophagy and the Cvt pathway are topologically and mechanistically similar and share most of the same machinery. The Ape1 complex is ultimately enwrapped within either Cvt vesicles or autophagosomes at the perivacuolar PAS. The receptor protein Atg19 binds to the Ape1 complex through the prApe1 propeptide to form the Cvt complex in the cytosol. In the absence of Atg19, prApe1 can form an Ape1 complex, but does not localise at the PAS. Atg19 is a peripheral membrane protein with differing binding sites for both Ape1 and Ams1. The Atg8-binding region in the yeast proteins is this very C-terminal residues.
Pfam PF19255: Family of unknown function (DUF5902) (family)
This is a family of uncharacterised proteins of unknown function predominantly 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 PF12734: Cysteine-rich TM module stress tolerance (family)
The members of this family are short cysteine-rich membrane proteins that most probably dimerise together to form a transmembrane sulfhydryl-lined pore. The CYSTM module is always present at the extreme C-terminus of the protein in which it is present. Furthermore, like the yeast prototypes, the majority of the proteins also possess a proline/glutamine-rich segment upstream of the CYSTM module that is likely to form a polar, disordered head in the cytoplasm. The presence of an atypical well-conserved acidic residue at the C-terminal end of the TM helix suggests that this might interact with a positively charged moiety in the lipid head group. Consistently across the eukaryotes, the different versions of the CYSTM module appear to have roles in stress-response or stress-tolerance, and, more specifically, in resistance to deleterious substances, implying that these might be general functions of the whole family.
Pfam PF18437: Nup54 C-terminal interacting domain (domain)
The mammalian nuclear pore complex (NPC) conducts nucleocytoplasmic transport and contains multiple copies of nucleoporins (nups). This is the C-terminal interacting domain found on Nup54. Nup45 is a splice variant of Nup58 with an identical alpha-helical region. Nup54 along with Nup62 and Nup58 are essential for nuclear transport. The C-terminal part of the alpha-helical region of Nup54 interacts with a C-terminal part of the alpha-helical region of Nup58. Interestingly, this region appears in two distinct conformations: a single helix and a helix-loop-helix, termed 'straight' and 'bent'. Whereas the straight conformer consists of a 34 residues long alpha helix (residues 460-493), the bent conformer is composed of two alpha helices, each 13 residues long, connected by a central loop (N helix, residues 460-472; C helix, residues 477-489).
Pfam PF07083: Protein of unknown function (DUF1351) (family)
This family consists of several bacterial and phage proteins of around 230 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 PF17611: Family of unknown function (DUF5506) (family)
This is a family of unknown function found in Fowl aviadenovirus.
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 PF19452: Family of unknown function (DUF5990) (family)
This entry represents a member of a biosynthetic gene cluster (BGC).  This BGC (BGC0001048) is described by MIBiG as an example of the following biosynthetic classes, NRP (non-ribosomal peptide), polyketide, and saccharide. This family includes a protein in the tallysomycin A biosynthetic gene cluster from Streptoalloteichus hindustanus. Some members of this family have been annotated as monooxygenase, but this could not be confirmed.
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 PF17145: Domain of unknown function (DUF5119) (family)
This is a family of uncharacterised Bacteroidia sequences.
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 PF13209: Protein of unknown function (DUF4017) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are approximately 60 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 PF09572: XamI restriction endonuclease (family)
This family includes the XamI (recognises GTCGAC but cleavage site unknown) restriction endonuclease.
Pfam PF05440: Tetrahydromethanopterin S-methyltransferase subunit B (family)
The N5-methyltetrahydromethanopterin: coenzyme M ([ec:2.1.1.86]) of  Methanosarcina mazei Go1 is a membrane-associated, corrinoid-containing protein that uses a transmethylation reaction to drive an energy-conserving sodium ion pump.
Pfam PF20528: Domain of unknown function (DUF6743) (domain)
This presumed domain family is functionally uncharacterised. This domain is found in Sar and is typically 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 PF03123: CAT RNA binding domain (domain)
This RNA binding domain is found at the amino terminus of transcriptional antitermination proteins such as BglG, SacY and LicT. These proteins control the expression of sugar metabolising operons in Gram+ and Gram- bacteria. This domain has been called the CAT (Co-AntiTerminator) domain. It binds as a dimer to short Ribonucleotidic Anti-Terminator (RAT) hairpin, each monomer interacting symmetrically with both strands of the RAT hairpin. In the full-length protein, CAT is followed by two phosphorylatable PTS regulation domains ([pfam:PF00874]) that modulate the RNA binding activity of CAT. Upon activation, the dimeric proteins bind to RAT targets in the nascent mRNA, thereby preventing abortive dissociation of the RNA polymerase from the DNA template.
Wikipedia: In molecular biology, the CAT RNA-binding domain is a protein domain found at the amino terminus of a family of transcriptional antiterminator proteins. This domain forms a dimer in the crystal structure. Transcriptional antiterminators of the BglG/SacY family are regulatory proteins that mediate the induction of sugar metabolizing operons in Gram-positive and Gram-negative bacteria. Upon activation, these proteins bind to specific targets in nascent mRNAs, thereby preventing abortive dissociation of the RNA polymerase from the DNA template.
Pfam PF03503: Chlamydia cysteine-rich outer membrane protein 3 (family)
Three cysteine-rich proteins (also believed to be lipoproteins) make up the extracellular matrix of the Chlamydial outer membrane . They are involved in the essential structural integrity of both the elementary body (EB) and recticulate body (RB) phase. As these bacteria lack the peptidoglycan layer common to most Gram-negative microbes, such proteins are highly important in the pathogenicity of the organism.

The largest of these is the major outer membrane protein (MOMP), and constitutes around 60% of the total protein for the membrane . OMP2 is the second largest, with a molecular mass of 58kDa, while the OMP3 protein is ~15kDa . MOMP is believed to elicit the strongest immune response, and has recently been linked to heart disease through its sequence similarity to a murine heart-muscle specific alpha myosin .

The OMP3 family plays a structural role in the outer membrane during the EB stage of the Chlamydial cell, and different biovars show a small, yet highly significant, change at peptide charge level . Members of this family include Chlamydia trachomatis, Chlamydia pneumoniae, and Chlamydia psittaci.
Pfam PF24733: Domain of unknown function (DUF7684) (domain)
This entry represents a group of uncharacterised bacterial proteins found in bacteria. They are predicted to adopt a globular alpha/beta structure that has some similarity to MurD C-terminal domain.
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 PF17100: N-terminal domain of NWD NACHT-NTPase (family)
This is an N-terminal domain on putative NWD NACHT proteins, signal transducing ATPases which undergo ligand-induced oligomerisation.
Pfam PF21450: RIF2, AAA+ lid domain (domain)
RIF2 is involved in transcriptional silencing and telomere length regulation. It belongs to the ATPase family associated with diverse cellular activities. This domain represents the alpha-helical AAA+ lid domain described in.
Pfam PF22668: Family of unknown function (DUF7009) (family)
This is a family of uncharacterised proteins found in bacteria. It is predicted to adopt a globular structure consisting of two nearly orthogonal beta-sheets and two helices that connect them. Toward the C terminus these proteins contain a highly conserved enriched with negatively charged residues region having nearly invariant EKDFxC 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 PF04123: Domain of unknown function (DUF373) (family)
Archaeal domain of unknown function.  Predicted to be an integral membrane protein with six transmembrane 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 PF23725: Caspase-8, N-terminal domain (domain)
This domain is found at the N-terminal end of Caspase-8 from Drosophila melanogaster (Dredd) and similar proteins mainly found in insects. Dredd is an effector of the programmed cell death (PCD) activators rpr, grim and hid. It plays a role in the innate immune response and may be involved in apoptosis in the germline as well as soma. This protein is predicted to be organised into three domains: this entry, [pfam:PF23724] and a caspase domain ([pfam:PF00656]). This domain is predicted to adopt an all-alpha configuration.
Pfam PF13322: Domain of unknown function (DUF4092) (family)
This family is found in Proteobacteria. The function is not 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 PF16123: Hydroxyacylglutathione hydrolase C-terminus (family)
This domain is found at the C-terminus of hydroxyacylglutathione hydrolase enzymes. Substrate binding occurs at the interface between this domain and the catalytic domain ([pfam:PF00753]).
Pfam PF12183: Restriction endonuclease NotI (domain)
This family of proteins is found in bacteria. Proteins in this family are typically between 270 and 341 amino acids in length. There is a conserved CPF sequence motif. The type IIP restriction enzyme, NotI, is a homodimer that recognises the 8 bp DNA sequence 5'-GC/GGCCGC-3' and cleaves both strands of DNA to create 5', 4 base cohesive overhangs.