SII-SWORD/CoKE huggingface dataset:
Pfam PF02956: TT viral orf 1 (family)
TT virus (TTV), isolated initially from a Japanese patient with hepatitis of unknown aetiology, has since been found to infect both healthy and diseased individuals and numerous prevalence studies have raised questions about its role in unexplained hepatitis. ORF1 is a large 750 residue protein. The N-terminal half of this protein corresponds to the capsid protein.
Pfam PF15936: Domain of unknown function (DUF4749) (family)
This presumed domain is functionally uncharacterised. This domain family is found in eukaryotes, and is typically between 121 and 170 amino acids in length. It is usually found in association with [pfam:PF00595] (PDZ) and [pfam:PF00412] (LIM), and often contains the conserved Zasp-like motif (IPR006643).
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 PF22643: NagA composite domain (domain)
This entry represents the N-terminal region of the composite domain from NagA (N-acetylglucosamine-6-phosphate deacetylase), a protein that catalyses the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate, the first committed step in the biosynthetic pathway to amino-sugar-nucleotides. This domain has a pseudo-barrel fold that is interrupted by the catalytic beta/alpha barrel domain.
Pfam PF10558: Mitochondrial 18 KDa protein (MTP18) (family)
This family of proteins are mitochondrial 18KDa proteins that are often misannotated as carbonic anhydrases. It was shown that knockdown of MTP18 protein results in a cytochrome c release from mitochondria and consequently leads to apoptosis. Overexpression studies suggest that MTP18 is required for mitochondrial fission.
Pfam PF16541: Alternaria alternata allergen 1 (domain)
AltA1 is a family of fungal allergens. It shows a unique beta-barrel comprising 11 beta-strands. There is structural evidence for the location of IgE antibody-binding epitopes. The crystal structure will allow efforts to promote immunotherapy for patients allergic to Alternaria species.
Pfam PF20905: Antiactivator protein ExsD C-terminal domain (domain)
The antiactivator protein ExsD represses the transcriptional activator ExsA. ExsA activates expression of type III secretion system genes. Repression of ExsA by ExsD is relieved by the secretion chaperone ExsC.
Pfam PF08513: LisH (domain)
The LisH (lis homology) domain mediates protein dimerisation and tetramerisation.  The LisH domain is found in Sif2, a component of the Set3 complex which is responsible for repressing meiotic genes.  It has been shown that the LisH domain helps mediate interaction with components of the Set3 complex.
Wikipedia: In molecular biology, the LisH domain is a protein domain found in a large number of eukaryotic proteins, from metazoa, fungi and plants that have a wide range of functions. The recently solved structure of the LisH domain in the N-terminal region of LIS1 depicted it as a novel dimerisation motif, and that other structural elements are likely to play an important role in dimerisation.
Pfam PF20068: Amphi-Trp domain (domain)
This domain usually comprises most of the span of bacterial or archaeal proteins with a length of about 90 amino acids. Some members, however, are extended by one or two copies of domain IPR010879 in the C-terminal region. No residue in this domain is invariant. A striking feature of this domain is a C-terminal region that alternates strongly charged with strongly hydrophobic residues and usually ends with a Trp residue, e.g. LEIEIEW or FEIKVRW, suggesting an amphipathic Î²-strand structure, therefore, the suggested the name for this domain is amphi-Trp. The function is unknown.
Pfam PF14388: Domain of unknown function (DUF4419) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria, eukaryotes and viruses. Proteins in this family are typically between 348 and 454 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 PF12485: SLy Proteins Associated Disordered Region (domain)
This entry represents the SLy proteins associated disordered region (SPIDER), which is conserved in the SLy protein family. It has a disordered nature and ranges from 143 to 154 residues long. The region includes a conserved LGKK motif of unknown function as well as a nuclear localisation sequence. In members of this group, found in vertebrates, this region is followed by a conserved SH3 ([pfam:PF07653]) and SAM ([pfam:PF07647]) domain, suggesting a role in the signalling function of these proteins. SPIDER is a part of the SASH1 protein that plays essential roles in tumour cell adhesion and migration. Multiple disease variants in the SPIDER of SASH1 suggest that it may play a role in the regulation of skin pigmentation.
Pfam PF18306: SLOG cluster4 family (family)
Family in the SLOG superfamily, observed as a standalone domain with little informative genome context, although related families in the SLOG superfamily are predicted to function in diverse conflict contexts.
Pfam PF11041: Protein of unknown function (DUF2612) (family)
This is a phage protein family expressed from a range of Proteobacteria species. 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 PF18948: Family of unknown function (DUF5692) (family)
This is a family of unknown function mostly 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 PF06674: Protein of unknown function (DUF1176) (family)
This family consists of several hypothetical bacterial proteins of around 340 residues in length. Members of this family contain six highly conserved cysteine residues. 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 PF15770: Domain of unknown function (DUF4699) (family)
This family of proteins is found in eukaryotes. Proteins in this family are typically between 303 and 319 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 PF15241: Cylicin N-terminus (family)
This is the N-terminus of cylicin proteins, which may play a role in spermatid differentiation.
Pfam PF05037: Protein of unknown function (DUF669) (family)
Members of this family are found in various phage 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 PF20243: MbnP (family)
This entry represents a group of uncharacterised proteins that include methanobactin biosynthesis operon protein MbnP.  The respective proteins, MbnP and MbnH, are referred to in the TIGRFAM database as the metallo-mystery pair.
Pfam PF02417: Chromate transporter (family)
Members of this family probably act as chromate transporters.  Members of this family are found in both bacteria and archaebacteria.  The proteins are composed of one or two copies of this region. The alignment contains two conserved motifs, FGG and PGP.
Pfam PF19147: Family of unknown function (DUF5829) (family)
This is a family of uncharacterised 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 PF06311: NUMB domain (family)
This presumed domain is found in the Numb family of proteins adjacent to the PTB domain..
Pfam PF03922: OmpW family (family)
This family includes outer membrane protein W (OmpW) proteins from a variety of bacterial species. This protein may form the receptor for S4 colicins in E. coli.
Wikipedia: Outer membrane protein W (OmpW) family is a family of evolutionarily related proteins from the bacterial outer membrane.
Pfam PF08618: Transcription factor Opi1 (family)
Opi1 is a leucine zipper containing yeast transcription factor that negatively regulates phospholipid biosynthesis.  It represses the expression of several UAS(INO) cis acting element containing genes and its activity is mediated by phosphorylations catalysed by protein kinase A, protein kinase C and casein kinase II.
Pfam PF20486: Family of unknown function (DUF6725) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are approximately 90 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 PF14888: Penicillin-binding protein Tp47 domain C (domain)
Domain C is the largest domain in this unusual penicillin-binding protein PBP), Tp47. This domain is mainly characterised by an immunoglobulin fold with two opposing beta-sheets that form the typical barrel-like structure. In contrast to the classical immunoglobulin fold, however, this has an additional beta-strand inserted after strand 3. Also, the strands are connected by rather large loops. Helices are inserted between strands 2 and 3 and between strands 4 and 5. Domain C interacts with domain B via a surface that has a slightly concave, goblet-like shape. Tp47 is unusual in that it displays beta-lactamase activity, and thus it does not fit the classical structural and mechanistic paradigms for PBPs, and thus Tp47 appears to represent a new class of PBP.
Pfam PF14587: O-Glycosyl hydrolase family 30 (domain)
This entry represents a domain found in endo-beta-1,6-galactanase (6GAL) and related proteins. In Trichoderma viride, 6GAL hydrolyzes galactooligomers with a degree of polymerization higher than 3 .
Wikipedia: In molecular biology, glycoside hydrolase family 30 is a family of glycoside hydrolases.
Pfam PF20564: Family of unknown function (DUF6774) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are typically between 57 and 70 amino acids in length. There is a conserved sequence motif QLGDTL.
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 PF22809: Domain of unknown function (DUF7014) (domain)
This domain is found in a group of bacterial proteins. It is often found C-terminal to [pfam:PF18863]. It is predicted to adopt an all-alpha helical 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 PF15933: Antitoxin to bacterial toxin RNase LS or RnlA (family)
RnlB_antitoxin, formerly known as yfjO, has been found to be the antidote protein to RNase LS or RnlA in E. coli. Bacterial toxin-antitoxin systems consist of a stable toxin and an unstable antitoxin. In this case, a novel type II system, RnlA is the stable toxin that causes inhibition of cell growth and rapidly degrades T4 late mRNAs to prevent their expression, and this is neutralised by the activity of the unstable antitoxin RnlB.
Pfam PF01413: C-terminal tandem repeated domain in type 4 procollagen (domain)
Duplicated domain in C-terminus of type 4 collagens. Mutations in alpha-5 collagen IV are associated with X-linked Alport syndrome.
Wikipedia: In molecular biology, the type IV collagen C4 domain is a duplicated domain present at the C-terminus of type IV collagens. Each type IV collagen contains a long triple-helical collagenous domain flanked by a short 7S domain of 25 amino acids and a globular non-collagenous C4 domain of ~230 amino acids at the N and C terminus, respectively. In protomer assembly, the C4 domains of three chains interact, forming a C4 trimer, to select and register chains for triple helix formation. In network assembly, the C4 trimers of two protomers interact, forming a C4 hexamer structure, to select and connect protomers.
Pfam PF11740: Plasmid replication region DNA-binding N-term (family)
The broad host-range plasmid RK2 is able to replicate in and be inherited in a stable manner in diverse Gram-negative bacterial species. It encodes a number of co-ordinately regulated operons including a central control korF1 operon that represses the kfrA operon. The KfrA polypeptide is a site-specific DNA-binding protein whose operator overlaps the kfrA promoter. The N-terminus, containing an helix-turn-helix motif, is essential for function. Downstream from this family is an extended coiled-coil domain containing a heptad repeat segment which is probably responsible for formation of multimers, and may provide an example of a bridge to host structures required for plasmid partitioning.
Pfam PF12457: Tuftelin interacting protein N terminal (family)
This domain family is found in eukaryotes, and is typically between 99 and 114 amino acids in length. The family is found in association with [pfam:PF08697], [pfam:PF01585]. There are two completely conserved residues (G and F) that may be functionally important. TIP is involved in enamel assembly by interacting with one of the major proteins responsible for biomineralisation of enamel - tuftelin.
Pfam PF17898: Spore germination GerD central core domain (domain)
This is the central core domain found in GerD from a thermophilic Bacillus. GerD plays a critical role in nutrient receptor-mediated spore germination in Bacillus species. The crystal structure of GerD reveals this domain as a trimeric superhelical rope fold. Alterations in GerD structure have profound effects on spores' nutrient germination.
Pfam PF00862: Sucrose synthase first GT-B domain (domain)
Sucrose synthases catalyse the synthesis of sucrose from UDP-glucose and fructose. This represents the first GT-B domain (also referred to as GT-BN in of sucrose synthases, while the second one, at the C-terminal (GT-BC), is represented in [pfam:PF00534]. The substrates of these proteins (UDP-Glc or UDP and fructose) bound in the cleft between the GT-B domains.
Wikipedia: In enzymology, a sucrose synthase is an enzyme that catalyzes the chemical reactionNDP-glucose + D-fructose ⇌ NDP + sucrose
Pfam PF14867: Lantibiotic alpha (family)
Lantibiotics are two-component lanthionine-containing peptide antibiotics active on Gram-positive bacteria.
Pfam PF02121: Phosphatidylinositol transfer protein (domain)
Along with the structurally unrelated Sec14p family (found in [pfam:PF00650]), this family can bind/exchange one molecule of phosphatidylinositol (PI) or phosphatidylcholine (PC) and thus aids their transfer between different membrane compartments. There are three sub-families - all share an N-terminal PITP-like domain, whose sequence is highly conserved. It is described as consisting of three regions. The N-terminal region is thought to bind the lipid and contains two helices and an eight-stranded, mostly antiparallel beta-sheet. An intervening loop region, which is thought to play a role in protein-protein interactions, separates this from the C-terminal region, which exhibits the greatest sequence variation and may be involved in membrane binding. PITP alpha ([swissprot:Q00169]) has a 16-fold greater affinity for PI than PC. Together with PITP beta ([swissprot:P48739]), it is expressed ubiquitously in all tissues.
Wikipedia: Phosphatidylinositol transfer protein (PITP) or priming in exocytosis protein 3 (PEP3) is a ubiquitous cytosolic domain involved in transport of phospholipids from their site of synthesis in the endoplasmic reticulum and Golgi to other
cell membranes.
Pfam PF16870: 2-oxoglutarate dehydrogenase C-terminal (family)
OxoGdeHyase_C is a family found immediately C-terminal to Transket_pyr, [pfam:PF02779]. It is found at the C-terminus of 2-oxoglutarate dehydrogenase.
Pfam PF12518: Protein of unknown function (family)
This domain family is found in bacteria and eukaryotes, and is approximately 30 amino acids in length. There is a conserved WMPC sequence motif. There are two completely conserved residues (A and C) 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 PF19995: inactive STAND (domain)
An inactive P-loop NTPase domain of the STAND subfamily of AAA+ NTPases. iSTAND is a component of the MoxR-vWA-iSTAND ternary systems of NTP-dependent conflict systems. The iSTAND component shows clear architectural parallels to the VMAP of the vWA-MoxR-VMAP systems.
Pfam PF03722: Hemocyanin, all-alpha domain (domain)
This family includes arthropod hemocyanins and insect larval storage proteins.
Wikipedia: Hemocyanins (also spelled haemocyanins and abbreviated Hc) are proteins that transport oxygen throughout the bodies of some invertebrate animals. These metalloproteins contain two copper atoms that reversibly bind a single oxygen molecule (O2). They are second only to hemoglobin in frequency of use as an oxygen transport molecule. Unlike the hemoglobin in red blood cells found in vertebrates, hemocyanins are not confined in blood cells, but are instead suspended directly in the hemolymph. Oxygenation causes a color change between the colorless Cu(I) deoxygenated form and the blue Cu(II) oxygenated form.
Pfam PF11405: Bromelain inhibitor VI (family)
Bromelain inhibitor VI is a double-chain inhibitor consisting of a 11-residue and a 41-residue chain. This protein is the 41-residue heavy chain which is joined to the 11-residue chain by disulphide bonds. The inhibitor acts to inhibit the cysteine proteinase bromelain.
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 PF09399: Betacoronavirus lipid binding protein (family)
This is a family of proteins found in SARS and SARS-like coronaviruses. It includes Protein 9b from SARS coronavirus 2 (SARS-CoV-2), human SARS coronavirus (SARS-CoV) and bat coronaviruses. Protein 9B is one of 8 accessory proteins in SARS-CoV. The gene (ORF 9b, also known as ORF 13) that encodes  this protein is included within the nucleocapsid (N) gene  (alternative ORF). Data suggest that protein 9b is a structural component of SARS-CoV virions and functions as an unusual  lipid binding protein. SARS-CoV ORF-9b has been shown to  localise to the outer mitochondrial membrane and to target  mitochondrial antiviral signalling proteins (MAVS), suppressing innate immunity. Protein 9b from SARS CoV comprises 98 amino acids. It's structure has a novel fold which forms a dimeric tent-like beta structure with an amphipathic surface, and a central hydrophobic cavity that binds lipid molecules. This cavity is likely to be involved in membrane attachment.
Pfam PF04583: Baculoviridae p74 conserved region (family)
Baculoviruses are distinct from other virus families in that there are two viral phenotypes: budded virus (BV) and occlusion-derived virus (ODV). BVs disseminate viral infection throughout the tissues of the host and ODVs transmit baculovirus between insect hosts.  GFP tagging experiments implicate p74 as an ODV envelope protein.
Pfam PF12176: Methanol-cobalamin methyltransferase B subunit (domain)
This family of proteins is found in bacteria and archaea. Proteins in this family are approximately 460 amino acids in length. MtaB folds as a TIM barrel and contains a novel zinc-binding motif. Zinc(II) lies at the bottom of a funnel formed at the C-terminal beta-barrel end and ligates to two cysteinyl sulfurs (Cys-220 and Cys-269) and one carboxylate oxygen (Glu-164). The function of this protein is to catalyse the cleavage of the C O bond in methanol by an SN2 mechanism. It complexes with MtaA and MtaC to perform this function.