SII-SWORD/CoKE huggingface dataset:
Pfam PF10279: Latarcin precursor (family)
This family represents the precursor proteins for a number of short antimicrobial peptides called Latarcins. Latarcins were discovered in the venom of the spider Lachesana tarabaevi. Latarcins are likely to adopt amphipathic alpha-helical structure in the plasma membrane.
Pfam PF19228: Family of unknown function (DUF5881) (family)
This is a family of uncharacterised proteins of unknown function predominantly found in viruses.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF20137: Family of unknown function (DUF6527) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are typically between 118 and 131 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 PF11235: Mediator complex subunit 25 synapsin 1 (domain)
This domain is found in a group of proteins specific to vertebrates that form part of the Mediator complex, a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. It coordinates the transcriptional activation of RAR/RXR (retinoic acid receptor/retinoic X receptor). Human Med25 consists of several domains with different binding properties, the N-terminal VWA domain, a synapsin 1 domain (SD1, this entry), a PTOV(B) or ACID domain, an SD2 domain and a C-terminal NR box-containing domain. The function of the SD domains is unclear.
Pfam PF18877: SSSPR-51 domain (domain)
This repeat domain is designated SSSPR-51, Streptococcal and Staphylococcal Surface Protein Repeat of size 51. These repeats are homologous to the listerial repeats of [pfam:PF06458], but shorter on average by about 8 amino acids.
Pfam PF15551: Domain of unknown function (DUF4656) (family)
This family of proteins is found in eukaryotes. Proteins in this family are typically between 286 and 398 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 PF04746: Protein of unknown function (DUF575) (family)
Family of uncharacterised proteins.  Contains several chlamydial members.
Pfam PF12993: Domain of unknown function, E. rectale Gene description (DUF3877) (family)
Based on Eubacterium rectale gene EUBREC_0237.  As seen in gene expression experiments (http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE14737), it appears to be upregulated in the presence of Bacteroides thetaiotaomicron vs when isolated in culture.
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 PF16609: SH3-RhoGEF linking unstructured region (disordered)
This family of natively unstructured but conserved residues from higher eukaryotes is found to lie between an SH3 [pfam:PF00018] and the RhoGEF, [pfam:PF00621], domains. It is serine-rich and likely to be acidic and natively unstructured.
Pfam PF20696: 3-octaprenyl-4-hydroxybenzoate carboxy-lyase C-terminal domain (domain)
This family has been characterised as 3-octaprenyl-4- hydroxybenzoate carboxy-lyase enzymes. This enzyme catalyses the third reaction in ubiquinone biosynthesis. For optimal activity the carboxy-lase was shown to require Mn2+. This entry represents the C-terminal domain.
Wikipedia: In molecular biology this protein domain, refers to UbiD, which is found in prokaryotes, archaea and fungi, with two members in Archaeoglobus fulgidus. They are related to UbiD, a 3-octaprenyl-4-hydroxybenzoate carboxy-lyase from Escherichia coli that is involved in ubiquinone biosynthesis. The member from Helicobacter pylori has a C-terminal extension of just over 100 residues that is shared, in part, by the Aquifex aeolicus homologue.
Pfam PF18095: UPF0242 C-terminal PAS-like domain (domain)
This domain is found at the C-terminus of proteins of the UPF0242 family. This domain is related to the PAS domain [pfam:PF13426].
Wikipedia: A Per-Arnt-Sim (PAS) domain is a protein domain found in all kingdoms of life. Generally, the PAS domain acts as a molecular sensor, whereby small molecules and other proteins associate via binding of the PAS domain. Due to this sensing capability, the PAS domain has been shown as the key structural motif involved in protein-protein interactions of the circadian clock, and it is also a common motif found in signaling proteins, where it functions as a signaling sensor.
Pfam PF00819: Myotoxin, crotamine (domain)
Crotamine is a family of cationic peptides expressed by the venom gland of, for example, Crotalus durissus terrificus. It acts as a cell-penetrating peptide (CPP) and as a potent voltage-gated potassium channel (Kv) inhibitor.
Wikipedia: Crotamine is a toxin present in the venom of the South American rattlesnake. It is a 42-residue-long protein containing 11 basic residues and six cysteines. It has also been isolated from the venom of North American prairie rattlesnake, Crotalus viridis viridis. It was first isolated and purified by Brazilian scientist José Moura Gonçalves, and later intensively studied by his group of collaborators at the Medical School of Ribeirão Preto of the University of São Paulo.
Pfam PF18127: Nicotinamide phosphoribosyltransferase, N-terminal domain (domain)
This is the N-terminal domain found in Nicotinamide phosphoribosyltransferase (NAMPT) present in Homo sapiens. NAMPT captures nicotinamide (NAM) and replenish the nicotinamide adenine dinucleotide (NAD+) pool during ADP-ribosylation and transferase reactions.
Pfam PF20434: BD-FAE (domain)
This entry represents a novel bifunctional feruloyl and acetyl xylan esterase (BD-FAE, previously known as bifunctional carbohydrate esterase (CE)), which is active on complex natural xylans and was identified as the basis of a monophyletic clade gathering all homologs identified in PULs (polysaccharide utilisation loci) predicted to act on xylan. It adopts an alpha-beta-hydrolase fold with the catalytic triad Ser-Asp-His. This new family of proteins is a new candidate for biomass processing due to its capacity to remove ferulic acid and acetic acid from natural corn and birchwood xylan substrates.
Pfam PF21979: Hfq related (domain)
Hfq proteins participate in RNA folding and translational regulation through pairing of small RNAs and messenger RNAs. Hfq proteins share the distinctive Sm fold, and form ring-shaped structures similar to those of the Sm/Lsm proteins regulating mRNA turnover in eukaryotes.
Pfam PF19071: Family of unknown function (DUF5767) (family)
This is a family uncharacterised proteins of unknown function found in viruses.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF21311: Phage 5-bladed beta propeller receptor binding platform domain (repeat)
This entry represents the receptor binding domain of a variety of bacteriophage. The cell wall of S. aureus typically contains poly-ribitol phosphate type wall teichoic acid (WTA), which is modified with D-alanine and N-acetyl-glucosamine (GlcNAc). It has been shown that phage psi11 requires GlcNAc residues on WTA for adsorption8. Gp45 of phage psi11 was identified and characterized as the receptor-binding protein (RBP). This entry represents the 5 bladed beta propeller platform domain that has been suggested to bind to the GlcNac substrate.
Pfam PF10471: Anaphase-promoting complex APC subunit CDC26 (family)
The anaphase-promoting complex (APC) or cyclosome is a cell cycle-regulated ubiquitin-protein ligase that regulates important events in mitosis such as the initiation of anaphase and exit from telophase. The APC, in conjunction with other enzymes, assembles multi-ubiquitin chains on a variety of regulatory proteins thereby targeting them for proteolysis by the 26S proteasome. CDC26 is one of the nine or so subunits identified within APC but its exact function is not known. The APC/C becomes active at the metaphase/anaphase transition and remains active during G1 phase. One mechanism linked to activation of the APC/C is phosphorylation.  The yeast APC/C is composed of at least 13 subunits, but the function of many of the subunits is unknown. Hcn1 is the smallest subunit of the S. pombe APC/C, and is found to be essential for cell viability, APC/C integrity, and proper APC/C regulation. In addition, Hcn1 phosphorylation indicates a specific role for the phosphorylation of this subunit late in the cell cycle.
Pfam PF02349: Major surface glycoprotein (family)
This is a novel repeat in Pneumocystis carinii Major surface glycoprotein (MSG) some members of the alignment have up to nine repeats of this family, the repeats containing several conserved  cysteines.  The MSG of P. carinii is an important protein in  host-pathogen interactions. Surface glycoprotein A [swissprot:O59920] from Pneumocystis carinii is a main target for the host immune system, this protein  is implicated in the attachment of Pneumocystis carinii to the host alveolar epithelial cells, alveolar macrophages,  host surfactant and possibly accounts in part for the hypoxia seen in Pneumocystis carinii pneumonia (PCP).
Pfam PF14239: RRXRR protein (family)
This domain is found in bacteria, eukaryotes and viruses, and is approximately 180 amino acids in length. It contains a conserved RRXRR motif. It is often found in association with [pfam:PF01844].
Pfam PF07330: Protein of unknown function (DUF1467) (family)
This family consists of several bacterial proteins of around 90 residues in length. The function of this family is unknown.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF07078: Forty-two-three protein (family)
This family consists of several mammalian proteins of around 320 residues in length called 40-2-3 proteins. The function of this family is unknown.
Pfam PF16526: C-terminal leucine zipper domain of cyclic nucleotide-gated channels (coiled_coil)
The CLZ domain is the C-terminal leucine-zipper domain of of cyclic nucleotide-gated channel proteins. The CLZ domains form homotypic trimers in solution thus constraining the channel of the CNGs to contain three cyclic nucleotide-gated subunits, CNGA. The CLZ domains formed homotypic parallel 3-helix coiled-coil domains, consistent with their proposed role in regulating subunit assembly.
Pfam PF14738: Cilia- and flagella-associated protein 91 (domain)
This entry represents a domain found in the CFAP91 protein. CFAP91 (also known as AMY-1-associating protein expressed in testis 1 or AAT-1) is a component of a spoke-associated complex, regulates flagellar dynein activity by mediating regulatory signals between the radial spokes and dynein arms. It binds to AMY1 and may play a role in spermatogenesis.
Pfam PF18532: Domain of unknown function (DUF5621) (domain)
This is a domain of unknown function found in gammaproteobacteria.
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 PF01624: MutS domain I (domain)
This domain is found in proteins of the MutS family (DNA mismatch repair proteins) and is found associated with [pfam:PF00488], [pfam:PF05188], [pfam:PF05192] and [pfam:PF05190]. The MutS family of proteins is named after the Salmonella typhimurium MutS protein involved in mismatch repair; other members of the family included the eukaryotic MSH 1,2,3, 4,5 and 6 proteins. These have various roles in DNA repair and recombination. Human MSH has been implicated in non-polyposis colorectal carcinoma (HNPCC) and is a mismatch binding protein. The aligned region corresponds with globular domain I, which is involved in DNA binding, in Thermus aquaticus MutS as characterised in.
Wikipedia: MutS is a mismatch DNA repair protein, originally described in Escherichia coli.
Pfam PF14741: N-terminal glycosyl-hydrolase-114-associated domain (domain)
This short domain is also a very small family found at the N-terminus of GH114, glycosyl-hydrolases.
Pfam PF00591: Glycosyl transferase family, a/b domain (domain)
This family includes anthranilate phosphoribosyltransferase (TrpD), thymidine phosphorylase.  All these proteins can transfer a phosphorylated ribose substrate.
Pfam PF17345: Family of unknown function (DUF5375) (family)
This is a family of unknown function found in Enterobacteriaceae.
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 PF04167: Protein of unknown function (DUF402) (family)
Family member FomD is a protein encoded in the fosfomycin biosynthesis gene cluster, which hydrolyses (S)-HPP-CMP to give (S)-HPP and CMP in the presence of Mn2 or Co2. FomD also hydrolyses cytidylyl 2-hydroxyethylphosphonate (HEP-CMP), which is a biosynthetic intermediate before C-methylation. FomD structure revealed that it has a beta-barrel fold consisting of a large twisted antiparallel beta-sheet, a key feature of DUF402-containing proteins. The function of this domain is unknown.  It has a Tyr residue which activates a water molecule to promote nucleophilic attack on the phosphorus atom of the phosphonate moiety. This domain has also been found in Ntdp (nucleoside tri- and diphosphatase, also known as Sa1684) from Staphylococcus aureus.
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 PF08896: Domain of unknown function (DUF1842) (domain)
This domain is found at the N-terminus of proteins that are functionally uncharacterised.
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 PF04214: Protein of unknown function, DUF (family)
The function of the members of this bacterial protein family is unknown. Some members may be involved in conferring cation resistance.
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 PF09890: Uncharacterized protein conserved in archaea (DUF2117) (family)
This domain, found in various hypothetical archaeal 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 PF21909: Ubiquitin-specific protease UIM domain (domain)
This entry represents the N-terminal ubiquitin-interacting motif (UIM) found in a number of ubiquitin-specific proteases (USP). This domain provides a structural basis for the recognition and recruitment of ubiquitin substrates, potentially conferring USP display of catalytic activity.
Pfam PF03867: Fushi tarazu (FTZ), N-terminal region (family)
This region contains the important motif (LXXLL) necessary for the interaction of FTZ with the nuclear receptor FTZ-F1. FTZ is thought to represents a category of LXXLL motif-dependent co-activators for nuclear receptors.
Pfam PF03958: Bacterial type II/III secretion system short domain (domain)
This is a short, often repeated, domain found in bacterial type II/III secretory system proteins. All previous NolW-like domains fall into this family.
Pfam PF06098: Radial spoke protein 3 (family)
This family consists of several radial spoke protein 3 (RSP3) sequences. Eukaryotic cilia and flagella present in diverse types of cells perform motile, sensory, and developmental functions in organisms from protists to humans. They are centred by precisely organised, microtubule-based structures, the axonemes. The axoneme consists of two central singlet microtubules, called the central pair, and nine outer doublet microtubules. These structures are well-conserved during evolution. The outer doublet microtubules, each composed of A and B sub-fibres, are connected to each other by nexin links, while the central pair is held at the centre of the axoneme by radial spokes. The radial spokes are T-shaped structures extending from the A-tubule of each outer doublet microtubule to the centre of the axoneme. Radial spoke protein 3 (RSP3), is present at the proximal end of the spoke stalk and helps in anchoring the radial spoke to the outer doublet. It is thought that radial spokes regulate the activity of inner arm dynein through protein phosphorylation and dephosphorylation.
Pfam PF02475: TRM5/TYW2 methyltransferase domain (domain)
This is the methyltransferase domain of TRM5/TYW2 proteins, SAM-dependent methyltransferases that are involved in tRNA methylation.
Pfam PF13729: F plasmid transfer operon, TraF, protein (domain)
Proteins in this family are putative bacterial conjugal transfer proteins.
Pfam PF15496: Domain of unknown function (DUF4646) (family)
This is a family of proteins largely from fungi.  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 PF08768: THAP4-like, heme-binding beta-barrel domain (domain)
This domain can be found in THAP4 from mammals and At1g79260 from Arabidopsis. THAP4 catalyzes the heme-based conversion of peroxynitrite into nitrate-NO3- in vitro. At1g79260 is a nitrophorin-like heme-binding protein that may reversibly bind nitric oxide (NO) and be involved in NO transport. This entry also includes the beta-barrel domain of Caenorhabditis elegans protein male abnormal 7 (Mab-7) which plays an important role in determining body shape and sensory ray morphology. Nitrobindins (Nbs), constituting a heme-protein family spanning from bacteria to Homo sapiens, display an all-beta-barrel structural organisation. Proteins containing this domain are putatively related to fatty acid-binding proteins (FABPs).
Pfam PF13520: Amino acid permease (family)
Amino acid permeases are integral membrane proteins involved in the transport of amino acids into the cell. A number of such proteins have been found to be evolutionary related . These proteins include several yeast specific and general amino acid permeases; Emericella nidulans (Aspergillus nidulans) proline transport protein (gene prnB); Trichoderma harzianum amino acid permease INDA1; Salmonella typhimurium L-asparagine permease (gene ansP); and several Escherichia coli and other bacterial permeases and transport proteins. These proteins seem to contain up to 12 transmembrane segments. This entry consists of members of the amino acid-polyamine-organocation (APC) superfamily .

Also included in this entry is the methylthioribose transporter mtrA from Bacillus subtilis, which transports methylthioribose into the cell .
Wikipedia: Amino acid permeases are membrane permeases involved in the transport of amino acids into the cell. A number of such proteins have been found to be evolutionary related. These proteins contain 12 transmembrane segments.
Pfam PF09892: Uncharacterized protein conserved in archaea (DUF2119) (domain)
This domain, found in various hypothetical archaeal proteins, has no known function. These proteins are predicted to adopt structure similar to the members of Zn-dependent exopeptidases clan.
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.