SII-SWORD/CoKE huggingface dataset:
Pfam PF03839: Translocation protein Sec62 (family)
Members of the NSCC2 family have been sequenced from various yeast, fungal and animals species including Saccharomyces cerevisiae, Drosophila melanogaster and Homo sapiens. These proteins are the Sec62 proteins, believed to be associated with the Sec61 and Sec63 constituents of the general protein secretary systems of yeast microsomes. They are also the non-selective cation (NS) channels of the mammalian cytoplasmic membrane. The yeast Sec62 protein has been shown to be essential for cell growth. The mammalian NS channel proteins have been implicated in platelet derived growth factor(PGDF) dependent single channel current in fibroblasts. These channels are essentially closed in serum deprived tissue-culture cells and are specifically opened by exposure to PDGF. These channels are reported to exhibit equal selectivity for Na+, K+ and Cs+ with low permeability to Ca2+, and no permeability to anions.
Pfam PF11491: Protein of unknown function (DUF3213) (family)
The backbone structure of this family of proteins has been determined however the function remains unknown. The protein has an alpha and beta structure with a ferredoxin-like 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 PF16455: Ubiquitin-binding domain (domain)
This ubiquitin-binding domain is found in ubiquitin domain-containing proteins.
Pfam PF23400: Card1 CARF domain (domain)
This is the CARF domain found at the N-terminal of a set of bacterial proteins, including Card1 (cyclic-oligoadenylate-activated single-stranded ribonuclease and single-stranded deoxyribonuclease 1) from Treponema succinifaciens ([swissprot:F2NWD3]), a protein that is part of type III CRISPR-Cas immune response system. This protein consists of a CARF (CRISPR-associated Rossmann fold) domain at the N-terminal, an helical hinge domain and a C-terminal endonuclease domain ([pfam:PF09002]).
Pfam PF19695: Family of unknown function (DUF6195) (family)
This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0000703) is described by MIBiG as an example of the following biosynthetic class, saccharide. It includes a member from the kanamycin biosynthetic gene cluster from Streptomyces  kanamyceticus.
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 PF12531: DNA-K related protein (family)
This domain family is found in bacteria, and is approximately 250 amino acids in length. There are two conserved sequence motifs: RPG and WRR. The proteins in this family are frequently annotated as DNA-K related proteins however there is little accompanying literature to confirm this.
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 PF00441: Acyl-CoA dehydrogenase, C-terminal domain (domain)
C-terminal domain of Acyl-CoA dehydrogenase is an all-alpha, four helical up-and-down bundle.
Pfam PF23592: CELSR2-like, ninth cadherin domain (domain)
This entry represents the last of 9 tandem cadherin domains occurring at the N-terminal of human Cadherin EGF LAG seven-pass G-type receptor 2 (CELSR2) and similar proteins predominantly found in animals. CELSR2 is a receptor that may have an important role in cell/cell signalling during nervous system formation. The N-terminal cadherin domains are represented by [pfam:PF00028].
Pfam PF21755: Probable sensor domain DacZ_P (domain)
This is a probable sensor domain found at the N-terminal of bacterial diadenylate cyclases, which are typically followed by the DAC ([pfam:PF02457]) domain. It is distantly related to PK_C ([pfam:PF02887]) and it consists of four alpha-helices and five beta-strands according to structure predictions.
Pfam PF14353: CpXC protein (family)
This presumed domain is functionally uncharacterised. This domain is found in bacteria and archaea, and is typically between 122 and 134 amino acids in length. It contains four conserved cysteines forming two CpXC motifs.
Pfam PF10579: Rapsyn N-terminal myristoylation and linker region (repeat)
Neuromuscular junction formation relies upon the clustering of acetylcholine receptors and other proteins in the muscle membrane. Rapsyn is a peripheral membrane protein that is selectively concentrated at the neuromuscular junction and is essential for the formation of synaptic acetylcholine receptor aggregates. Acetylcholine receptors fail to aggregate beneath nerve terminals in mice where rapsyn has been knocked out. The N-terminal six amino acids of rapsyn are its myristoylation site, and myristoylation is necessary for the targeting of the protein to the membrane.
Pfam PF21189: PHA02142 OB-fold domain (domain)
This entry represents an N-terminal OB-fold domain found in the putative RNA-ligase PHA02142. DNA ligases and RNA capping enzymes have a shared core domain structure in which a conserved OB-fold domain is linked to the C-terminus of the NTase domain.
Pfam PF16475: Domain of unknown function (DUF5052) (family)
This family consists of uncharacterized proteins around 200 residues in length and is mainly found in various Firmicutes species. 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 PF23710: Family of unknown function (DUF7155) (family)
This protein family includes a group of uncharacterised short sequences from actinobacteria, including the predicted secreted protein [swissprot:K5BB12] from Mycolicibacterium hassiacum.
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 PF08766: DEK C terminal domain (domain)
DEK is a chromatin associated protein that is linked with cancers and autoimmune disease.  This domain is found at the C terminal of DEK and is of clinical importance since it can reverse the characteristic abnormal DNA-mutagen sensitivity in fibroblasts from ataxia-telangiectasia (A-T) patients. The structure of this domain shows it to be homologous to the E2F/DP transcription factor family.  This domain is also found in chitin synthase proteins like [swissprot:Q8TF96], and in protein phosphastases such as [swissprot:Q6NN85].
Pfam PF19254: Family of unknown function (DUF5901) (family)
This is a family of uncharacterised proteins of unknown function predominantly found in Phycodnaviridae. This family also includes proteins found in plants.
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 PF22315: PF0095-like, C-terminal domain (domain)
This domain is found at the C-terminal end of the transcription factor PF0095 from Pyrococcus furiosus and similar archaeal sequences.
Pfam PF20936: Grap2 and cyclin-D-interacting, C-terminal (domain)
GCIP, or Grap2 and cyclin-D-interacting protein (also Human homologue of murine maternal Id-like molecule (HHM)), is found in eukaryotes, and in the protein [swissprot:O95273], residues 149-190 constitute a helix-loop-helix domain, residues 190-240 an acidic region, and 240-261 a leucine zipper domain. GCIP interacts with full-length Grap2 protein and with the COOH-terminal unique and SH3 domains (designated QC domain) of Grap2. It is potentially involved in the regulation of cell differentiation and proliferation through Grap2 and cyclin D-mediated signalling pathways. In mice, it is involved in G1/S-phase progression of hepatocytes, which in older animals is associated with the development of liver tumours. In vitro, it acts as an inhibitory HLH protein, for example, blocking transcription of the HNF-4 promoter. In its function as a cyclin D1-binding protein it is able to reduce CDK4-mediated phosphorylation of the retinoblastoma protein and to inhibit E2F-mediated transcriptional activity. GCIP has also been shown to have interact physically with Rad (Ras associated with diabetes), Rad being important in regulating cellular senescence. GCIP adopts a V-shaped conformation, with N and C-terminal five-helix bundles. This entry represents the C-terminal domain.
Pfam PF08193: INO80 complex subunit Ies4 (family)
The INO80 ATPase is a member of the SNF2 family of ATPases and functions as an integral component of a multisubunit ATP-dependent chromatin remodelling complex.  This family of proteins corresponds to the fungal Ies4 subunit of INO80.
Pfam PF11151: Protein of unknown function (DUF2929) (family)
This family of proteins with unknown function appears to be restricted to Firmicutes.
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 PF11545: Cell surface heme-binding protein Shp (family)
Shp is part of a complex which functions in heme uptake in Streptococcus pyogenes. During which, Shp transfers its heme to HtsA which is a component of an ABC transporter. The heme binding region of Shp contains an immunoglobulin-like beta-sandwich fold and has a unique heme-iron coordination with the axial ligands being two methionine residues from the same Shp molecule. Surrounding the heme pocket, there is a negative surface which may serve as a docking interface for heme transfer.
Pfam PF16093: Proteasome assembly chaperone 4 (family)
PAC4 or proteasome assembly chaperone 4 protein promotes assembly of the 20S proteasome. It interacts with PSMG3. It associates with alpha subunits of the 20S proteasome. At the very C-terminal is a crucial HbYX or hydrophobic-tyrosine-X sequence motif that, in proteasome activators, opens the 20S proteasome entry pore.
Pfam PF14989: Coiled-coil domain containing 32 (coiled_coil)
This family of proteins is found in eukaryotes. Proteins in this family are typically between 160 and 188 amino acids in length. The gene that encodes this protein is C15orf57 but its protein product is called Protein CCDC32 (Coiled-coil domain containing 32). The exact function of this protein is still unknown.
Pfam PF16623: Unstructured linker region between on GAS7 protein (disordered)
WW_FCH_linker is a natively unstructured region on GAS7 or Growth arrest-specific protein 7 higher eukaryote proteins. It lies between the WW and the FCH domains. The function is not known but it carries a highly conserved TINCVTFP sequence motif which might be a binding domain.
Pfam PF23606: Serine/threonine-protein kinase ULK4-like, HEAT repeats (repeat)
This region of HEAT repeats is found in human Serine/threonine-protein kinase ULK4 and similar sequences mainly found in animals and plants. ULK4 may be involved in the remodeling of cytoskeletal components and in the regulation of neurite branching and elongation, as well as cell motility.
Pfam PF19125: Family of unknown function (DUF5809) (family)
This is a family of proteins of unknown function predominantly found in Halobacteria.
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 PF13967: Late exocytosis, associated with Golgi transport (family)
This family represents the first three transmembrane regions of 11-TM proteins involved in vesicle transport. In S. cerevisiae these proteins are members of the yeast facilitator superfamily and are integral membrane proteins localised to the cell periphery, in particular to the bud-neck region. The distribution is consistent with a role in late exocytosis which is in agreement with the proteins' ability to substitute for the function of Sro7p, required for the sorting of the protein Enap1 into Golgi-derived vesicles destined for the cell surface.
Pfam PF23222: PAR14-like, first RRM domain (domain)
This domain is found N-terminal in the homologues of human mono-ADP-ribosyltransferase PARP14 including E3 ubiquitin- protein ligase DTX3L. PARP14 is an ADP-ribosyltransferase that mediates mono-ADP-ribosylation of glutamate residues on target proteins. DTX3L on other side is a E3 ubiquitin- protein ligase which, in association with ADP-ribosyltransferase PARP9, plays a role in DNA damage repair and in interferon- mediated antiviral responses. The domain represented by this entry shares significant sequence similarity with NID domain found in IFP35 and Nmi. These domains are predicted to adopt similar structures with topology typical for RNA-binding domains.
Pfam PF07983: X8 domain (domain)
The X8 domain domain contains at least 6 conserved cysteine residues that presumably form three disulphide bridges. The domain is found in an Olive pollen allergen as well as at the C-terminus of several families of glycosyl hydrolases. This domain may be involved in carbohydrate binding. This domain is characteristic of GPI-anchored domains.
Wikipedia: In molecular biology, the X8 domain, is thought to play a role in targeting the plasmodesmata by providing it with structural support. The domain is able to do this since it contains signal sequences for a glycosylphosphatidylinositol (GPI) linkage to the extracellular face of the plasma membrane. This domain is involved in carbohydrate binding.
Pfam PF15959: Domain of unknown function (DUF4762) (family)
This family of proteins is found in bacteria. Proteins in this family are approximately 70 amino acids in length. There is a conserved TTC 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 PF08770: Sulphur oxidation protein SoxZ (domain)
SoxZ forms an anti parallel beta structure and forms a complex with SoxY.  Sulphur oxidation occurs at the thiol of a conserved cysteine residue of the SoxY subunit.
Pfam PF15688: Nuclear receptor-interacting protein 1 repression 2 (family)
This domain is the second repression domain of nuclear receptor-interacting protein 1.
Wikipedia: Nuclear receptor-interacting protein 1 (NRIP1) also known as receptor-interacting protein 140 (RIP140) is a protein that in humans is encoded by the NRIP1 gene.
Pfam PF10373: Est1 DNA/RNA binding domain (repeat)
Est1 is a protein which recruits or activates telomerase at the site of polymerisation. This is the DNA/RNA binding domain of EST1.
Pfam PF21167: Domain of unknown function (DUF6851) (domain)
This domain of unknown function is found in the N-terminal region of a group of bacterial proteins, including Haloperoxidase from Muricauda lutaonensis. In this protein, this domain is found associated to [pfam:PF01569]. Its specific function 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 PF02241: Methyl-coenzyme M reductase beta subunit, C-terminal domain (domain)
Methyl-coenzyme M reductase (MCR) is the enzyme responsible for microbial formation of methane. It is a hexamer composed of 2 alpha ([pfam:PF02249]), 2 beta (this family), and 2 gamma ([pfam:PF02240]) subunits with two identical nickel porphinoid active sites. The C-terminal domain of MCR beta has an all-alpha fold with buried central helix.
Pfam PF09165: Ubiquinol-cytochrome c reductase 8 kDa, N-terminal (domain)
Members of this family adopt a structure consisting of many antiparallel beta sheets, with few alpha helices, in a non-globular arrangement. They are required for proper functioning of the respiratory chain.
Wikipedia: The coenzyme Q : cytochrome c – oxidoreductase, sometimes called the cytochrome bc1 complex, and at other times complex III, is the third complex in the electron transport chain, playing a critical role in biochemical generation of ATP. Complex III is a multisubunit transmembrane protein encoded by both the mitochondrial and the nuclear genomes. Complex III is present in the mitochondria of all animals and all aerobic eukaryotes and the inner membranes of most bacteria. Mutations in Complex III cause exercise intolerance as well as multisystem disorders. The bc1 complex contains 11 subunits, 3 respiratory subunits, 2 core proteins and 6 low-molecular weight proteins.
Pfam PF10538: Hantavirus ITAM motif (conserved_site)
This entry represents an ITAM motif found in Hantavirus glycoprotein N.
Pfam PF17666: Family of unknown function (DUF5528) (family)
This is a family of unknown function found in Chordata.
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 PF18981: Internalin K domain (D3/D4) (domain)
This domain is found at the elbow of internalin surface proteins, used by the bacteria to invade mammalian cells. This domain has an Ig-like fold.
Pfam PF02727: Copper amine oxidase, N2 domain (domain)
This domain is the first or second structural domain in copper amine oxidases, it is known as the N2 domain. Its function is uncertain. The catalytic domain can be found in [pfam:PF01179]. Copper amine oxidases are a ubiquitous and novel group of quinoenzymes that catalyse the oxidative deamination of primary amines to the corresponding aldehydes, with concomitant reduction of molecular oxygen to hydrogen peroxide. The enzymes are dimers of identical 70-90 kDa subunits, each of which contains a single copper ion and a covalently bound cofactor formed by the post-translational modification of a tyrosine side chain to 2,4,5-trihydroxyphenylalanine quinone (TPQ).
Wikipedia: Amine oxidase (copper-containing) (AOC) (EC 1.4.3.21 and EC 1.4.3.22; formerly EC 1.4.3.6) is a family of amine oxidase enzymes which includes both primary-amine oxidase and diamine oxidase; these enzymes catalyze the oxidation of a wide range of biogenic amines including many neurotransmitters, histamine and xenobiotic amines. They act as a disulphide-linked homodimer. They catalyse the oxidation of primary amines to aldehydes, with the subsequent release of ammonia and hydrogen peroxide, which requires one copper ion per subunit and topaquinone as cofactor:RCH2NH2 + H2O + O2  RCHO + NH3 + H2O2
Pfam PF00884: Sulfatase (family)
This entry represents a domain found in sulphatases.
Wikipedia: In biochemistry, sulfatases EC 3.1.6.- are a class of enzymes of the esterase class that catalyze the hydrolysis of sulfate esters into an alcohol and a bisulfate:
Pfam PF15829: Domain of unknown function (DUF4711) (family)
This family of proteins is found in eukaryotes. Proteins in this family are typically between 130 and 288 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 PF05495: CHY zinc finger (domain)
This family of domains are likely to bind to zinc ions. They contain many conserved cysteine and histidine residues. We have named this domain after the N-terminal motif CXHY. This domain can be found in isolation in some proteins, but is also often associated with [pfam:PF00097].  One of the proteins in this family ([swissprot:P36078]) is a mitochondrial intermembrane space protein called Hot13. This protein is involved in the assembly of small TIM complexes.
Pfam PF04266: ASCH domain (domain)
The ASCH domain adopts a beta-barrel fold similar to the [pfam:PF01472] domain.  It is thought to function as an RNA-binding domain during coactivation, RNA-processing and possibly during prokaryotic translation regulation.
Pfam PF14926: Cilia- and flagella-associated protein 300 (family)
CFAP300 is a cilia- and flagella-associated protein that is essential for assembly of dynein arms. Mutations in the CFAP300 gene (C11orf70) cause defective cilia motility and primary ciliary dyskinesia.
Pfam PF15511: Centromere kinetochore component CENP-T histone fold (domain)
CENP-T is a family of vertebral kinetochore proteins that associates directly with CENP-W. The N-terminus of CENP-T proteins interacts directly with the Ndc80 complex in the outer kinetochore.  Importantly, the CENP-T-W complex does not directly associate with CENP-A, but with histone H3 in the centromere region. CENP-T and -W form a hetero-tetramer with CENP-S and -X and bind to a ~100 bp region of nucleosome-free DNA forming a nucleosome-like structure.  The DNA-CENP-T-W-S-X complex is likely to be associated with histone H3-containing nucleosomes rather than with CENP-nucleosomes. This domain is the C-terminal histone fold domain of CENP-T, which associates with chromatin.