SII-SWORD/CoKE huggingface dataset:
Pfam PF19598: Family of unknown function (DUF6103) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in Firmicute bacteria. Proteins in this family are typically between 83 and 94 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 PF13021: Domain of unknown function (DUF3885) (domain)
This entry represents a domain family that is found in bacteria. There is a conserved YDDRG sequence motif. The family includes YnaE from B. subtilis.
Pfam PF22644: BsNagA composite domain (domain)
This entry represents the composite domain of NagA from Bacillus subtilis, a N-acetylglucosamine-6-phosphate deacetylase, similar to that from E.coli. However, they have some sequence differences.
Pfam PF16929: Accessory Sec system GspB-transporter (family)
Asp2 is a family of the SecA2/Y2 accessory Sec secretory system of Gram-positive bacteria. It is specific for large serine-rich repeat, cell-wall-anchored, glycoproteins such as GspB. Export of GspB requires the three Asp1-Asp3 proteins. Asp2, in conjunction with Asp3, probably acts as a chaperone in the early stage of GspB transport. Asp2 directly interacts with Aps1 and Asp3 to form a complex and stabilizes it; this complex is essential for substrate export. Moreover, Asp2 acetylates the GlcNAc residues on GspB. Asp1/2/3 complex stimulates the ATPase activity of SecA2 and also affects the export and glycosylation of pneumococcal serine-rich repeat proteins (PrsPs).
Pfam PF24585: YunG protein (domain)
This entry represents the uncharacterised B. subtilis YunG protein and its homologues. These proteins contain a potential catalytic triad composed of Cys, His and Asp residues.
Pfam PF18743: REase_AHJR-like (domain)
REase Fold fused to HEPN(DUF86) [pfam:PF01934].
Pfam PF15323: Developmental protein (family)
This family of proteins are found in eukaryotes. These proteins have an important role to play in developmental biology, particularly embryogenesis. It plays an important role in cell survival and axial pattern. It is also thought to be a crucial subunit in the tRNA splicing ligase complex. Proteins in this family are typically between 141 and 232 amino acids in length. There are two conserved sequence motifs: HPE and PQR.
Pfam PF14589: Polysulfide reductase (domain)
Bacterial polysulfide reductase is an integral membrane protein complex responsible for quinone-coupled reduction of polysulfide, a process important in extreme environments such as deep-sea vents and hot springs. Polysulfides are a class of compounds composed of chains of sulfur atoms, which in their simplest form are present as an anion with general formula Sn(2-). In nature, polysulfides are found in particularly high concentrations in extreme volcanic or geothermically active environments. Here, the reduction and oxidation of polysulfides are vital processes for many bacteria and are essential steps in the global sulfur cycle. In particular, the reduction of polysulfide to hydrogen sulfide in these environments is usually linked to energy-generating respiratory processes, supporting growth of many microorganisms, particularly hyperthermophiles.
Pfam PF20739: Potential transfer protein TraK (domain)
This entry represents the TraK protein found in the pIP501 Type IV Secretion System operon. The protein localised to the cell envelope, facing towards the cell exterior, and behaves as a monomer under the tested conditions. It adopts a mixed alpha-beta fold with seven alpha helices and nine beta strands.
Pfam PF10053: Uncharacterized conserved protein (DUF2290) (family)
Members of this family of hypothetical bacterial 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 PF18617: Nucleoporin Nup214 phenylalanine-glycine (FG) domain (domain)
CRM1 is the major nuclear export receptor. During translocation through the nuclear pore, transport complexes transiently interact with phenylalanine-glycine (FG) repeats of multiple nucleoporins. On the cytoplasmic side of the nuclear pore, CRM1 tightly interacts with the nucleoporin Nup214. Nup214 binds to N- and C-terminal regions of CRM1, thereby clamping CRM1 in a closed conformation and stabilizing the export complex. This entry represents an FG repeat region within the C terminus of Nup214 which is required for its interaction with CRM1.
Pfam PF00204: DNA gyrase B (domain)
This family represents the second domain of DNA gyrase B which has a ribosomal S5 domain 2-like fold.  This family is structurally related to PF01119.
Pfam PF21474: DNA polymerase II, N-terminal (domain)
This is the N-terminal domain of bacterial DNA polymerase II. This entry represents the OB fold.
Pfam PF10684: Putative biofilm-dependent modulation protein (family)
This is a family of tightly conserved proteins from Enterobacteriaceae which are annotated as being biofilm-dependent modulation protein homologues.
Pfam PF02472: Biopolymer transport protein ExbD/TolR (family)
This group of proteins are membrane bound transport proteins essential for ferric ion uptake in bacteria. The Pfam family consists of ExbD, and TolR which are involved in TonB-dependent transport of various  receptor bound substrates including colicins.
Pfam PF08068: DKCLD (NUC011) domain (domain)
This is a TruB_N/PUA domain associated N-terminal domain of Dyskerin-like proteins.
Pfam PF11799: impB/mucB/samB family C-terminal domain (domain)
These proteins are involved in UV protection (Swiss).
Pfam PF07796: Protein of unknown function (DUF1638) (family)
This family contains sequences covering an approximately 270 amino acid stretch of a group of hypothetical proteins. These proteins are expressed by archaeal species of the Methanosarcina genus.
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 PF18504: Csm1 N-terminal domain (coiled_coil)
In the budding yeast Saccharomyces cerevisiae, sister chromatid co-orientation in meiosis I depends on the four-protein monopolin complex (Mam1, Csm1, Lrs4, and Hrr25/casein kinase 1), which localizes to centromeres from meiotic prophase through metaphase I. Csm1 and Lrs4, form a complex that resides in the nucleolus during interphase and relocalizes to centromeres during meiotic prophase, accompanied by phosphorylation of Lrs4. This is the N-terminal domain of Csm1 which forms a coiled-coil.
Pfam PF00984: UDP-glucose/GDP-mannose dehydrogenase family, central domain (domain)
The UDP-glucose/GDP-mannose dehydrogenaseses are a small group of enzymes which possesses the ability to catalyse the NAD-dependent 2-fold oxidation of an alcohol to an acid without the release of an aldehyde  intermediate.
Pfam PF17257: Family of unknown function (DUF5323) (family)
This family of proteins found in Eukaryota, 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 PF18994: Prophage endopeptidase tail N-terminal domain (domain)
This domain represents the N-terminal domain of prophage tail proteins that are probably acting as endopeptidases. This domain has a RIFT related fold.
Pfam PF18441: Hen1 La-motif C-terminal domain (domain)
RNA silencing is a conserved regulatory mechanism in fungi, plants and animals that regulates gene expression and defence against viruses and transgenes. A conserved S-adenosyl-l-methionine-dependent RNA methyltransferase, HUA ENHANCER 1 (HEN1), and its homologues are responsible for 2'-O-methylation on the 3' terminal nucleotide of microRNAs and small interfering RNAs (siRNAs). The 2'-O-methylation protects miRNAs and siRNAs from 3'-end uridylation and 3'-to-5' exonuclease-mediated degradation. This domain lies on the C-terminal region of the La-motif domain found in HEN1.
Pfam PF24642: Domain of unknown function (DUF7636) (domain)
This domain is found in uncharacterised proteins mainly from nematodes. It is predicted to adopt a globular structure consisting of a three-stranded antiparallel beta-sheet and three alpha-helices packed on one side of it.
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 PF18881: Family of unknown function (DUF5646) (family)
This is a family of unknown function. Family members include the archaeal homolog the bacterial RelB, a toxin-antitoxin system which is activated during amino acid starvation. This family is mostly found in thermococcus archaea.
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 PF14507: CppA C-terminal (family)
This is the C-terminal domain of the CppA protein found in species of Streptococcus. CppA is a putative C3-glycoprotein degrading proteinase, involved in pathogenicity. It is often found associated with [pfam:PF14506].
Pfam PF06052: 3-hydroxyanthranilic acid dioxygenase (domain)
In eukaryotes 3-hydroxyanthranilic acid dioxygenase ([ec:1.13.11.6]) is part of the kynurenine pathway for the degradation of tryptophan and the biosynthesis of nicotinic acid.The prokaryotic homolog is involved in the 2-nitrobenzoate degradation pathway.
Pfam PF15387: Domain of unknown function (DUF4611) (family)
This family of proteins is found in eukaryotes. Proteins in this family are typically between 71 and 100 amino acids in length. There is a conserved AKR 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 PF19693: Phenol-soluble modulin delta protein (family)
This entry represents the phenol-soluble modulin delta peptide found in staphylococcal species.
Pfam PF12998: Inhibitor of growth proteins N-terminal histone-binding (coiled_coil)
Histones undergo numerous post-translational modifications, including acetylation and methylation, at residues which are then probable docking sites for various chromatin remodelling complexes. Inhibitor of growth proteins (INGs) specifically bind to residues that have been thus modified. INGs carry a well-characterised C-terminal PHD-type zinc-finger domain, binding with lysine 4-tri-methylated histone H3 (H3K4me3), as well as this N-terminal domain that binds unmodified H3 tails. Although these two regions can bind histones independently, together they increase the apparent association of the ING for the H3 tail.
Pfam PF23820: Family of unknown function (DUF7190) (family)
This entry represents a putative membrane protein found in several mycobacteriophages, especially those belonging to the genus Cheoctovirus.  The function is unknown. Most members contain a predicted transmembrane helix near the N-terminus. The family shows some length variation, especially at the C-terminus.
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 PF07704: Rv0623-like transcription factor (domain)
This entry represents the Rv0623-like ([swissprot:P96913]) family of transcription factors associated with the PSK operon.
Pfam PF22319: Domain of unknown function (DUF6972) (domain)
This domain is found in uncharacterised bacterial proteins either standalone or in combination with other domains. It is probably distantly related to the C-terminal domain of CdiA toxin (CdiA-CT), known member of RNase A superfamily.
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 PF00645: Poly(ADP-ribose) polymerase and DNA-Ligase Zn-finger region (domain)
Poly(ADP-ribose) polymerase is an important regulatory component of the cellular response to DNA damage. The amino-terminal region of Poly(ADP-ribose) polymerase consists of two PARP-type zinc fingers.  This region acts as a DNA nick sensor.
Pfam PF15175: Spermatogenesis-associated protein 24 (family)
This family of proteins bind to DNA and to TBP (TATA box binding protein), TATA-binding protein (TBP)-related protein 2 (TRF2) and several polycomb factors. It is likely to function as a transcription regulator.
Pfam PF04093: rod shape-determining protein MreD (family)
MreD (murein formation D) is involved in the rod shape determination in E. coli, and more generally in cell shape determination of bacteria whether or not they are rod-shaped.
Pfam PF10218: SREBP regulating gene protein (family)
SPRING1 is a glycosylated Golgi-resident membrane protein involved in SREBP signaling and cholesterol metabolism. It modulates the proper localisation of SCAP (SREBP cleavage-activating protein) to the endoplasmic reticulum, thereby controlling the level of functional SCAP.
Pfam PF24534: PCA1 HMA heavy metal-associated domain (domain)
This domain is found in the yeast P-type cation-transporting ATPase (PCA1). PCA1 is a cadmium transporting P-type ATPase which plays a critical role in cadmium resistance by extruding intracellular cadmium. This domain has a detectable similarity to heavy-metal-binding domains and it is predicted to adopt similar structure.
Pfam PF21706: Sulfide dehydrogenase [flavocytochrome c] flavoprotein chain, central (domain)
This domain is located centrally in Sulfide dehydrogenase [flavocytochrome c] flavoprotein chain from the proteobacteria Allochromatium vinosum, a component of the enzyme that catalyses the reversible conversion of sulphide to elemental sulfur in vitro. This domain is C-terminal to [pfam:PF07992] and N-terminal to [pfam:PF09242]. This domain shows a five-stranded parallel beta-sheet flanked on one side by three alpha-helices and on the other side by a three-stranded anti parallel beta-sheet.
Pfam PF07431: Protein of unknown function (DUF1512) N-terminal domain (domain)
This family consists of several archaeal proteins of around 370 residues in length. The function of this family is unknown. This entry corresponds to the N-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 PF04306: Protein of unknown function (DUF456) (family)
This family is a putative membrane protein that contains glycine zipper motifs.
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 PF11623: NAD(P)H dehydrogenase subunit S (family)
This family is found in Bacteria and Streptophyta includes members such as NdhS (NAD(P)H-quinone oxidoreductase subunit S). NdhS, also known as CRR31 (chlororespiratory reduction 31), is a subunit of the chloroplast NADH dehydrogenase-like (NDH) complex. It is also a subunit of the cyanobacterial NDH-1 complex. NAD(P)H-oxidizing subunits have not been found in chloroplasts or cyanobacteria, where ferredoxin is probably the electron donor. NdhS contributes to the formation of a ferredoxin binding site of NDH and is necessary for high affinity binding of ferredoxin. The cyanobacterial NDH-1 complex, also known as NADPH:plastoquinone oxidoreductase or type I NAD(P)H dehydrogenase, is involved in plastoquinone reduction and cyclic electron transfer (CET) around photosystem I. The chloroplast NDH is more similar to cyanobacterial NDH-1, which is believed to be the origin of chloroplast NDH, than to mitochondrial NADH dehydrogenase present in the same species. The NDH complexes of chloroplasts, however, contain many subunits that are absent from cyanobacterial NDH-1 complexes.
Pfam PF04607: Region found in RelA / SpoT proteins (family)
This region of unknown function is found in RelA and SpoT of Escherichia coli, and their homologues in plants and in other eubacteria. RelA is a guanosine 3',5'-bis-pyrophosphate (ppGpp) synthetase ([ec:2.7.6.5]) while SpoT is thought to be a bifunctional enzyme catalysing both ppGpp  synthesis and degradation (ppGpp 3'-pyrophosphohydrolase, ([ec:3.1.7.2])). This region is often found in association with HD ([pfam:PF01966]), a  metal-dependent phosphohydrolase, TGS ([pfam:PF02824]) which is a possible  nucleotide-binding region, and the ACT regulatory domain ([pfam:PF01842]).
Pfam PF16932: Type IV secretory system, conjugal DNA-protein transfer (family)
T4SS_TraI is a family of putative Gram-negative, largely Proteobacterial, type IV conjugal DNA-Protein transfer or VirB secretory pathway (IVSP) proteins.
Pfam PF21481: Dickkopf-related protein 1/2/4, C-terminal subdomain 1 (domain)
Dickkopf-related proteins are cysteine-rich secretory proteins and highly conserved inhibitors of the canonical Wnt signaling pathway, which play key roles in many essential biological processes. This entry represents the C-terminal cysteine-rich domain which is strongly conserved in Dkk1, Dkk2 and Dkk4, and directly contacts LRP6. This domain is described as two subdomains, each consisting of three anti-parallel beta-strands that are connected by a long loop which contains a short alpha-helix. This entry represents the first subdomain, the second is covered in [pfam:PF21479]. In Dkk3 the residues differ and is consistent with studies indicating that Dkk3 is a divergent family member that does not inhibit Wnt signalling. This domain share significant sequence similarity to the colipase fold.
Pfam PF11773: Competence system putative prepilin ComGE (family)
Members of this family are ComGE (protein E of the comG locus), as found in multiple species of Streptococcus. The protein is suggested to be a prepilin.
Pfam PF12076: CER1-like, C-terminal domain (domain)
Very-long-chain aldehyde decarbonylase CER1 is an aldehyde decarbonylase involved in the conversion of aldehydes to alkanes. It is the core component of a very-long-chain alkane synthesis complex and it is involved in epicuticular wax biosynthesis and pollen fertility. CER1 is also linked to responses to biotic and abiotic stresses. This entry represents the C-terminal domain of CER1 from Arabidopsis and GL1 1-7 from rice. This domain is found associated with [pfam:PF04116]. This domain has a conserved LEGW sequence motif. This region has similarity to short chain dehydrogenases.
Pfam PF03109: ABC1 atypical kinase-like domain (domain)
This family includes ABC1 from yeast and AarF from E. coli. These proteins have a nuclear or mitochondrial  subcellular location in eukaryotes. The exact molecular functions of these proteins is not clear, however yeast ABC1 suppresses a cytochrome b mRNA translation defect and is essential for the electron transfer in the bc 1 complex and E. coli AarF is required for ubiquinone production. It has been  suggested that members of the ABC1 family are novel chaperonins. These proteins are unrelated to the ABC transporter proteins.
Pfam PF20793: Adenosine monophosphate-protein transferase VopS, N-terminal domain (domain)
This domain is found at the N-terminal end of VopS from Vibrio parahaemolyticus. VopS is an adenylyltransferase involved in virulence by provoking the disruption of Rho GTPase signaling and the inhibition of actin assembly in infected cells. This domain is required for full activity of VopS. It consists of nine alpha helices.
Pfam PF22691: Thiolase C-terminal domain-like (domain)
This domain is found C-terminal in a number of thiolases and their homologues. Thiolases are essential CoA-dependent enzymes in lipid metabolism. This domain folds into a four-stranded antiparallel beta-sheet with helices packed on one side.
Pfam PF02790: Cytochrome C oxidase subunit II, transmembrane domain (family)
The N-terminal domain of cytochrome C oxidase contains two transmembrane alpha-helices.
Wikipedia: Cytochrome c oxidase II is a protein in eukaryotes that is encoded by the MT-CO2 gene. Cytochrome c oxidase subunit II, abbreviated COXII, COX2, COII, or MT-CO2, is the second subunit of cytochrome c oxidase. It is also one of the three mitochondrial DNA (mtDNA) encoded subunits of respiratory complex IV.
Pfam PF14617: U3-containing 90S pre-ribosomal complex subunit (family)
This is a family of fungal and plant CMS1-like proteins. The family has similarity to the DEAD-box helicases.