SII-SWORD/CoKE huggingface dataset:
Pfam PF11380: Stealth protein CR2, conserved region 2 (family)
Stealth_CR2 is the second of several highly conserved regions on stealth proteins in metazoa and bacteria. There are up to four CR regions on all member proteins.  CR2 carries a well-conserved NDD sequence-motif. The domain is found in tandem with CR1, CR3 and CR4 on both potential metazoan hosts and pathogenic eubacterial species that are capsular polysaccharide phosphotransferases. The CR domains appear on eukaryotic proteins such as GNPTAB, N-acetylglucosamine-1-phosphotransferase subunits alpha/beta. Horizontal gene-transfer seems to have occurred between host and bacteria of these sequence-regions in order for the bacteria to evade detection by the host innate immune system.
Pfam PF00015: Methyl-accepting chemotaxis protein (MCP) signalling domain (family)
This domain is thought to transduce the signal to CheA since it is highly conserved in very diverse MCPs.
Pfam PF21538: ARC105/Med15 mediator subunit central domain (domain)
This domain is found in the Med15 subunit of the ARC-Mediator co-activator complex.
Wikipedia: Mediator of RNA polymerase II transcription subunit 15, also known as Gal11, Spt13 in yeast and PCQAP, ARC105, or TIG-1 in humans is a protein encoded by the MED15 gene.
Pfam PF14157: YmzC-like protein (repeat)
The YmzC-like protein family includes the B. subtilis YmzC protein [swissprot:O31797], which is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are typically between 58 and 91 amino acids in length. There is a conserved ELR sequence motif.
Pfam PF22926: C1 domain-like, C-terminal (domain)
This entry includes variations of the protein kinase C1 domain that is characterised by a rich cysteine content. This domain is involved in binding many ligands, which include diacylglycerol, phorbol esters and zinc.
Pfam PF20253: Family of unknown function (DUF6604) (family)
This entry represents a putative domain found at the N-terminus of a wide range of fungal proteins of unknown function.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF05343: M42 glutamyl aminopeptidase (family)
These peptidases are found in Archaea and Bacteria. The example in Lactococcus lactis, PepA, aids growth on milk. Pyrococcus horikoshii contain a thermostable de-blocking aminopeptidase member of this family used commercially for N-terminal protein sequencing.
Pfam PF11329: Protein of unknown function (DUF3131) (repeat)
This bacterial family of proteins 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 PF03253: Urea transporter (family)
Members of this family transport urea across membranes. The family includes a bacterial homologue [swissprot:Q9S408].
Wikipedia: A urea transporter is a membrane transport protein, transporting urea. Humans and other mammals have two types of urea transport proteins, UT-A and UT-B. The UT-A proteins are important for renal urea handling and are produced by alternative splicing of the SLC14A2 gene. Urea transport in the kidney is regulated by vasopressin.
Pfam PF01676: Metalloenzyme superfamily (family)
This family includes phosphopentomutase [swissprot:P07651] and 2,3-bisphosphoglycerate-independent phosphoglycerate mutase, [swissprot:P37689]. This family is also related to [pfam:PF00245]. The alignment contains the most conserved residues that are probably involved in metal binding and catalysis.
Pfam PF17366: A-agglutinin-binding subunit Aga2 (family)
The wall of Saccharomyces cerevisiae consists of mannoproteins, beta-glucans, and a small amount of chitin. Mannoproteins include Aga2p where this domain family is found. There are two main display systems for yeast, the agglutinin system and the flocculin system. The S. cerevisiae sexual agglutinins facilitate the mating between two types of cells, a and alpha. A-Agglutinin consists of two subunits, encoded by two unlinked genes, AGA1 and AGA2. The cell surface adhesion protein (Aga2), enhances agglutination between a and alpha cells. Optimal binding includes interactions of the alpha-agglutinin binding pocket with the Aga2p terminal carboxyl group. This O-mannosylated glycopeptide is doubly disulfide linked to Aga1p. The Aga2p half-cystines near the ends of the peptide are linked to two Aga1p Cys residues separated by only two residues. This closeness of the disulfide bonds stabilizes the alpha/beta structure in Aga2p.
Wikipedia: Yeast display is a protein engineering technique that uses the expression of recombinant proteins incorporated into the cell wall of yeast. This method can be used for several applications such as isolating and engineering antibodies and determining host-microbe interactions.
Pfam PF05824: Pro-melanin-concentrating hormone (Pro-MCH) (family)
This family consists of several mammalian pro-melanin-concentrating hormone (Pro-MCH) 1 and 2 proteins. Melanin-concentrating hormone (MCH) is a 19 amino acid cyclic peptide that was first isolated from the pituitary of teleost fish. It is produced from pro-MCH that encodes, in addition to MCH, NEI, and a putative peptide, NGE. In lower vertebrates, MCH acts to regulate skin colour by antagonising the melanin-dispersing actions of small alpha, Greek-melanocyte stimulating hormone (small alpha, Greek-MSH). In mammals, MCH serves as a neuropeptide and is found in many regions of the brain and especially the hypothalamus. It affects many types of behaviours such as appetite, sexual receptivity, aggression, and anxiety. MCH also stimulates the release of luteinising hormone.
Pfam PF05531: Nucleopolyhedrovirus P10 protein (family)
This family consists of several nucleopolyhedrovirus P10 proteins which are thought to be involved in the morphogenesis of the polyhedra.
Pfam PF06652: Methuselah N-terminus (domain)
This family represents the N-terminal region of the Drosophila specific Methuselah protein. Drosophila Methuselah (Mth) mutants have a 35% increase in average lifespan and increased resistance to several forms of stress, including heat, starvation, and oxidative damage. The protein affected by this mutation is related to G protein-coupled receptors of the secretin receptor family. Mth, like secretin receptor family members, has a large N-terminal ectodomain, which may constitute the ligand binding site. This family is found in conjunction with [pfam:PF00002].
Wikipedia: The Methuselah-like proteins are a family of G protein-coupled receptors found in insects that play a role in aging and reproduction. Antagonizing these receptors can extend the life span of the animal and make it more resistant to free radicals and starvation, but also reduce reproduction and increase cold sensitivity. The age dependent decline in olfaction and motor function is unaffected.
Pfam PF15118: Domain of unknown function (DUF4560) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in eukaryotes. Proteins in this family are typically between 66 and 78 amino acids in length. There are two conserved sequence motifs: FCK and RTL.
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 PF08544: GHMP kinases C terminal (domain)
This family includes homoserine kinases, galactokinases and mevalonate kinases.
Wikipedia: In molecular biology, the GHMP kinase family is a family of kinase enzymes. Members of this family include homoserine kinases EC 2.7.1.39, galactokinases EC 2.7.1.6, and mevalonate kinasesEC 2.7.1.36. These kinases make up the GHMP kinase superfamily of ATP-dependent enzymes. These enzymes are involved in the biosynthesis of isoprenes and amino acids as well as in carbohydrate metabolism. These enzymes contain, in their N-terminal section, a conserved Gly/Ser-rich region which is probably involved in the binding of ATP. The C-terminal domain of homoserine kinase has a central alpha-beta plait fold and an insertion of four helices, which, together with the N-terminal fold, creates a novel nucleotide binding fold.
Pfam PF11707: Ribosome 60S biogenesis N-terminal (family)
Npa1p is required for ribosome biogenesis and operates in the same functional environment as Rsa3p and Dbp6p during early maturation of 60S ribosomal subunits. The protein partners of Npa1p include eight putative helicases as well as the novel Npa2p factor. Npa1p can also associate with a subset of H/ACA and C/D small nucleolar RNPs (snoRNPs) involved in the chemical modification of residues in the vicinity of the peptidyl transferase centre. The protein has also been referred to as Urb1, and this domain at the N-terminal is one of several conserved regions along the length.
Pfam PF19705: Family of unknown function (DUF6202) (family)
This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0000877) is described by MIBiG as an example of the following biosynthetic class, other (unspecified). It includes a member from the polyoxin A biosynthetic gene cluster from  Streptomyces cacaoi subsp. asoensis.
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 PF05271: Tobravirus 2B protein (family)
This family consists of several tobravirus 2B proteins. It is known that the 2B protein is required for transmission by both Paratrichodorus  pachydermus and P. anemones nematodes.
Pfam PF12417: Zinc finger protein (family)
This domain family is found in eukaryotes, and is typically between 64 and 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 PF11295: Protein of unknown function (DUF3096) (family)
This family of proteins with unknown function appears to be restricted to Proteobacteria.
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 PF04698: Rab effector MyRIP/melanophilin C-terminus (family)
This domain is found at the C-terminus of the Rab effector proteins MyRIP and melanophilin.
Pfam PF20185: Family of unknown function (DUF6548) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are around 180 amino acids in length. They contain highly conserved motifs, YKxLD and I/LC at the N-terminal and LKxxRxxRN in the middle.
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 PF13644: DKNYY family (repeat)
This family represents a group of proteins found enriched in fusobacteria. These proteins contain many repeats of a DKNXXYY motif. The repeats are spaced at about 35 amino acid residues intervals. These proteins are likely to be associated with the membrane. The specific function of these proteins is unknown. Each repeat forms a four stranded beta meander.
Pfam PF23024: Disco-interacting protein 2-like, AMP domain (domain)
This domain is found in Disco-interacting protein 2 from Drosophila melanogaster (DIP2) and similar sequences from eukaryotes and bacteria. DIP2 is required for precise axonal bifurcation in mushroom body neurons and may play a role in fatty acid metabolism. This protein harbours one DNA methyltransferase 1-associated protein 1-binding (DMAP1- binding) domain ([pfam:PF06464]) and two AMP-dependent synthase (AMP) domains (this entry). This domain is often found associated to [pfam:PF00501] and shows an alpha-beta configuration.
Pfam PF11692: Protein of unknown function (DUF3289) (family)
This family of proteins with unknown function appears to be restricted to Proteobacteria. Recently, it was proposed that members of this family along with members of DUF943 ([pfam:PF06092]) should be recognised as a putative toxin-antitoxin pair in which DUF3289 is a homolog of Colicin M and DUF943 ([pfam:PF06092])  acts as its cognate immunity protein.
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 PF10616: Protein of unknown function (DUF2471) (family)
The function of this family is unknown. Members all come from Burkholderia spp. [swissprot:A2WH83] is annotated as Serine/threonine-protein kinase, 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 PF15321: ATPase family AAA domain containing 4 (family)
ATAD4 is a family of proteins is found in eukaryotes. The family is also known as PRR15L, or proline-rich 15-like. ATAD4 is expressed almost exclusively in post-mitotic cells both during foetal development and in adult tissues, such as the intestinal epithelium and the testis. Its expression in mouse and human gastrointestinal tumours is linked, directly or indirectly, to the disruption of the Wnt signaling pathway.
Pfam PF24632: Domain of unknown function (DUF7629) (domain)
This is an Ig-like domain found at the N-terminal of proteins from Plasmodium falciparum and related sequences from Plasmodiidae. The function of these protein 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 PF19766: Family of unknown function (DUF6253) (family)
This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0001778) is described by MIBiG as an example of the following biosynthetic class, other (unspecified). It includes a  member from the showdomycin biosynthetic gene cluster from  Streptomyces showdoensis.
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 PF06486: Protein of unknown function (DUF1093) (family)
This family consists of several hypothetical bacterial proteins of unknown function.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF04082: Fungal specific transcription factor domain (domain)
This domain is found in a number of fungal transcription factors including transcriptional activator xlnR, yeast regulatory protein  GAL4, and nicotinate catabolism cluster-specific transcription factor HxnR.
Pfam PF19945: Family of unknown function (DUF6407) (family)
This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0000926) is described by MIBiG as an example of the following biosynthetic class, other (unspecified), in particular  the rhizocticin A biosynthetic gene cluster from Bacillus subtilis  subsp. spizizenii ATCC 6633.
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 PF17382: Uncharacterized Ycf70-like (family)
This is a family of unknown function found in Poaceae.
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 PF09906: Uncharacterized protein conserved in bacteria (DUF2135) (family)
This domain, found in various hypothetical prokaryotic proteins, 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 PF19186: Family of unknown function (DUF5868) (family)
This is a family of uncharacterised proteins of unknown function predominantly found in Mimiviridae.
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 PF02992: Transposase family tnp2 (family)
Transposase_21 proteins are present mostly in plants, with members horizontally transferred to Bifidobacterium breve (GI: 291457831). Both DUF1258 [pfam:PF06869] and Transposase_21 have conserved active site residues similar to RNase H-like proteins, which suggests that they are functional transposases (1).
Pfam PF17211: VHL box domain (domain)
This domain represents the short C-terminal alpha helical domain from the VHL protein.
Pfam PF09213: M3 (domain)
Members of this family of viral chemokine binding proteins adopt a structure consisting of two different beta-sandwich domains of partial topological similarity to immunoglobulin-like folds. They bind with the CC-chemokine MCP-1, acting as cytokine decoy receptors.
Pfam PF24272: Family of unknown function (DUF7468) (family)
This entry represents a conserved protein family found in cyanophages that infect marine Synechococcus and Prochlorococcus. The function of this protein is unknown. It is typically 70-100 amino acids in length. The protein appears to be specific to cyanophages and is not found in their cyanobacterial hosts.
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 PF05124: S-layer like family, outer domain (domain)
This entry represents a domain composed of the N and C-terminal segments of the protein.
Pfam PF16848: Substrate of the Dot/Icm secretion system, putative (domain)
This is a family of putative substrates of the Dot/Icm type IVA secretion system from Legionella species.
Pfam PF07880: Bacteriophage T4 gp9/10-like protein, N-terminal (domain)
This entry represents the N-terminal domain of Baseplate protein gp9 from Bacteriophage T4, a component of the viral baseplate. Gp9 connects the long tail fibres of the virus to the baseplate and triggers tail contraction after viral attachment to a host cell. The protein is active as a trimer, with each monomer being composed of three domains. The N-terminal domain consists of an extended polypeptide chain and two alpha helices. The alpha1 helix from each of the three monomers in the trimer interacts with its counterparts to form a coiled-coil structure. The middle domain is a seven-stranded beta-sandwich. This entry represents the region including these two domains. Noticeably, the long flexible region between N-terminal and middle domains may be required for the function of gp9 to transmit signals from the long tail fibres. Together with gp11, gp10 initiates the assembly of wedges that then go on to associate with a hub to form the viral baseplate.