SII-SWORD/CoKE huggingface dataset:
Pfam PF22001: PTEN upstream open reading frame MP31 (family)
This protein family represents human PTEN upstream open reading frame MP31, a micropeptide that inhibits lactate dehydrogenase (LDH)-mediated conversion of lactate to pyruvate in mitochondria by competing with mitochondrial LDH for binding to NAD+ and also inhibits cellular lactate utilisation.
Pfam PF21650: DNA primase DnaG, catalytic core, helical bundle (domain)
This domain is found in DNA primase from Staphylococcus aureus (DnaG) and similar proteins predominantly found in firmicutes. DnaG is an RNA polymerase that catalyses the synthesis of short RNA molecules used as primers for DNA polymerase during DNA replication. This entry represents the helical bundle (HB) found at the C-terminal of the catalytic core of DnaG.
Pfam PF08287: Spc19 (family)
Spc19 is a component of the DASH complex.                 The DASH complex associates with the spindle pole body and is important for spindle and kinetochore integrity during cell division.
Pfam PF24617: POF1B helix-loop-helix domain (domain)
This domain is found in human protein POF1B and its homologues. Human POF1B plays a key role in the organization of epithelial monolayers by regulating the actin cytoskeleton. This domain is predicted to adopt a structure consisting of two helices connected by a loop region. The function of this domain is unknown but mutation of a conserved arginine 329 in human is associated with premature ovarian failure. This point mutation reduces the capacity of the mutant protein to bind non-muscle actin filaments.
Pfam PF09274: ParG (domain)
Members of this family of plasmid partition proteins adopt a ribbon-helix-helix fold, with a core of four alpha-helices. They are an essential component of the DNA partition complex of the multidrug resistance plasmid TP228.
Pfam PF20246: Family of unknown function (DUF6601) (family)
This entry represents a family found in fungi. The function of this region is unknown. It appears to contain a pair of C-terminal transmembrane helices.
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 PF00595: PDZ domain (domain)
PDZ domains are found in diverse signaling proteins.
Wikipedia: The PDZ domain is a common structural domain of 80-90 amino-acids found in the signaling proteins of bacteria, yeast, plants, viruses and animals. Proteins containing PDZ domains play a key role in anchoring receptor proteins in the membrane to cytoskeletal components. Proteins with these domains help hold together and organize signaling complexes at cellular membranes. These domains play a key role in the formation and function of signal transduction complexes. PDZ domains also play a highly significant role in the anchoring of cell surface receptors to the actin cytoskeleton via mediators like NHERF and ezrin.
Pfam PF14008: Iron/zinc purple acid phosphatase-like protein C (domain)
This domain is found at the C-terminus of Purple acid phosphatase proteins.
Pfam PF14841: FliG middle domain (family)
This is the middle domain of the flagellar rotor protein FliG.
Pfam PF01833: IPT/TIG domain (domain)
This family consists of a domain that has an immunoglobulin like fold. These domains are found in cell surface receptors such as Met and Ron as well as in intracellular transcription factors where it is involved in DNA binding. CAUTION: This family does not currently recognise a significant number of members.
Pfam PF04165: Protein of unknown function (DUF401) (family)
Members if this family are predicted to have 10 transmembrane regions.
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 PF11695: Domain of unknown function (DUF3291) (domain)
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 PF19641: Family of unknown function (DUF6144) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria and archaea. Proteins in this family are approximately 190 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 PF06607: Prokineticin (family)
This family consists of several prokineticin proteins and related BM8 sequences. The suprachiasmatic nucleus (SCN) controls the circadian rhythm of physiological and behavioural processes in mammals. It has been shown that prokineticin 2 (PK2), a cysteine-rich secreted protein, functions as an output molecule from the SCN circadian clock. PK2 messenger RNA is rhythmically expressed in the SCN, and the phase of PK2 rhythm is responsive to light entrainment. Molecular and genetic studies have revealed that PK2 is a gene that is controlled by a circadian clock.
Pfam PF25156: PNGase_A C-terminal domain (domain)
This entry represents a presumed region found at the C-terminal of PNGase_A from almond and related sequences. It may consist of a planar beta-sheet containing nine beta-strands.
Pfam PF06364: Protein of unknown function (DUF1068) (family)
This family consists of several hypothetical plant proteins from Arabidopsis thaliana and Oryza sativa. 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 PF10051: Uncharacterized protein conserved in archaea (DUF2286) (family)
Members of this family of hypothetical archaeal proteins have no known function.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF12616: Protein of unknown function (DUF3775) (family)
This domain family is found in bacteria, and is approximately 80 amino acids in length. There is a single completely conserved residue G 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 PF11248: Protein of unknown function (DUF3046) (family)
This family of proteins with unknown function appears to be restricted to Actinobacteria.
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 PF09117: MiAMP1 (domain)
MiAMP1 is a highly basic protein from the nut kernel of Macadamia integrifolia which inhibits the growth of several microbial plant pathogens in vitro while having no effect on mammalian or plant cells. It consists of eight beta-strands which are arranged in two Greek key motifs. These Greek key motifs then associate to form a Greek key beta-barrel.
Pfam PF22423: Alpha-amylase-like, C-terminal (domain)
This domain is found at the C-terminal end of Alpha-amylase from Thermotoga neapolitana (AmyB), which belongs to glycoside hydrolase family 13 (GH13) and liberates maltose from multiple substrates, including starch, amylopectin and glycogen. This domain shows an all-beta structure.
Pfam PF17921: Integrase zinc binding domain (domain)
This zinc binding domain is found in a wide variety of integrase proteins.
Pfam PF11565: Alpha helical Porin B (family)
Porin B is a porin from Corynebacterium glutamicum which allows the exchange of material across the mycolic acid layer which is the protective nonpolar barrier. Porin B has an alpha helical core structure consisting of four alpha-helices surrounding a nonpolar interior. There is a disulphide bridge between helices 1 and 4 to form a stable covalently bound ring. The channel of PorB is oligomeric.
Wikipedia: Porins B and C are cell wall channel-forming proteins from Corynebacterium. Porin B from Corynebacterium glutamicum allows the exchange of material across the mycolic acid layer, which is the protective nonpolar barrier. Porin B has an alpha helical core structure consisting of four alpha-helices surrounding a nonpolar interior. There is a disulfide bridge between helices 1 and 4 to form a stable covalently bound ring. The channel of PorB is oligomeric.
Pfam PF22254: Tfa2 E-tether (domain)
The small TFIIE subunit Tfa2 (yeast TFIIE-beta) contains two WH domains and two conserved alpha-helices called the E-tether that bind the E-linker. Consistent with the structure, the E-tether is essential for TFIIE function and subunit dimerisation. Members of this group are found in fungi.
Pfam PF02055: Glycosyl hydrolase family 30 TIM-barrel domain (domain)
This entry represents a TIM-barrel domain found in the glycosyl hydrolase family 30 members.
Glycoside hydrolase family 30 GH30 comprises enzymes with only one known activity; glucosylceramidase (3.2.1.45).

Family 30 encompasses the mammalian glucosylceramidases. Human acid beta-glucosidase (D-glucosyl-N-acylsphingosine glucohydrolase), cleaves the glucosidic bonds of glucosylceramide and synthetic beta-glucosides . Any one of over 50 different mutations in the gene of glucocerebrosidase have been found to affect activity of this hydrolase, producing variants of Gaucher disease, the most prevalent lysosomal storage disease .
Wikipedia: In molecular biology, glycoside hydrolase family 30 is a family of glycoside hydrolases.
Pfam PF11987: Translation-initiation factor 2 (domain)
IF-2 is a translation initiator in each of the three main phylogenetic domains (Eukaryotes, Bacteria and Archaea). IF2 interacts with formylmethionine-tRNA, GTP, IF1, IF3 and both ribosomal subunits. Through these interactions, IF2 promotes the binding of the initiator tRNA to the A site in the smaller ribosomal subunit and catalyses the hydrolysis of GTP following initiation-complex formation.
Pfam PF13661: 2OG-Fe(II) oxygenase superfamily (domain)
This family contains members of the 2-oxoglutarate (2OG) and Fe(II)-dependent oxygenase superfamily.
Pfam PF16240: Domain of unknown function (DUF4899) (family)
A small family of uncharacterized proteins around 340 residues in length and found in various Thermotoga and Thermosipho species. The function of this family is unknown.
Pfam PF10793: Gloverin-like protein (family)
This family of proteins are Gloverin-like. Gloverin is a 13.8kDa inducible antibacterial insect protein which inhibits the synthesis of vital outer membrane proteins leading to a permeable outer membrane. Gloverin contains a large number of glycine residues.
Wikipedia: Gloverin is an inducible antibacterial insect protein which inhibits the synthesis of vital outer membrane proteins leading to a permeable outer membrane. Gloverin contains a large number of glycine residues.
Pfam PF23551: Zinc beta-ribbon domain (domain)
This domain is found in a group of uncharacterised proteins mainly from plants. It is predicted to adopt a zinc beta-ribbon fold and contains a pairs of highly conserved CxxC sequence motifs. This domain is frequently found in combination with DnaJ domain ([pfam:PF00226]).
Pfam PF04316: Anti-sigma-28 factor, FlgM (family)
FlgM binds and inhibits the activity of the transcription factor sigma 28. Inhibition of sigma 28 prevents the expression of genes from flagellar transcriptional class 3, which include genes for the filament and chemotaxis.  Correctly assembled basal body-hook structures export FlgM, relieving inhibition of sigma 28 and allowing expression of class 3 genes. NMR studies show that free FlgM is mostly unfolded, which may facilitate its export. The C terminal half of FlgM adopts a tertiary structure when it binds to sigma 28.  All mutations in FlgM that prevent sigma 28 inhibition affect the C-terminal domain and is the region thought to constitute the binding domain. A minimal binding domain has been identified between Glu 64 and Arg 88 in Salmonella typhimurium ([swissprot:P26477]).  The N-terminal portion remains unstructured and may be necessary for recognition by the export machinery.
Pfam PF02604: Antitoxin Phd_YefM, type II toxin-antitoxin system (domain)
Members of this family act as antitoxins in type II toxin-antitoxin systems.  When bound to their toxin partners, they can bind DNA via the N-terminus and repress the expression of operons containing genes encoding the toxin and the antitoxin.  This domain complexes with Txe toxins containing [pfam:PF06769], Fic/DOC toxins containing [pfam:PF02661] and YafO toxins containing [pfam:PF13957].
Pfam PF10694: Protein of unknown function (DUF2500) (family)
The members of this family are largely confined to the Gammaproteobacteria. 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 PF25105: Family of unknown function (DUF7813) (family)
This entry represents uncharacterised proteins found in plants. They are predicted to adopt structures similar to choline-like transporters.
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 PF02800: Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain (domain)
GAPDH is a tetrameric NAD-binding enzyme involved in glycolysis and glyconeogenesis. C-terminal domain is a mixed alpha/antiparallel beta fold.
Wikipedia: Glyceraldehyde 3-phosphate dehydrogenase is an enzyme of about 37kDa that catalyzes the sixth step of glycolysis and thus serves to break down glucose for energy and carbon molecules. In addition to this long established metabolic function, GAPDH has recently been implicated in several non-metabolic processes, including transcription activation, initiation of apoptosis, ER-to-Golgi vesicle shuttling, and fast axonal, or axoplasmic transport. In sperm, a testis-specific isoenzyme GAPDHS is expressed.
Pfam PF23528: Apicomplexa microprotein (family)
This protein family includes uncharacterised microproteins encoded by small open reading frames (smORFs) from apicomplexa, including [swissprot:A7ASW9] from the parasite Babesia bovis.
Pfam PF14566: Inositol hexakisphosphate (domain)
Inositol hexakisphosphate, often called phytate, is found in abundance in seeds and acting as an inorganic phosphate reservoir. Phytases are phosphatases that hydrolyze phytate to less-phosphorylated myo-inositol derivatives and inorganic phosphate. The active-site sequence (HCXXGXGR) of the phytase identified from the gut micro-organism Selenomonas ruminantium forms a loop (P loop) at the base of a substrate binding pocket that is characteristic of protein tyrosine phosphatases (PTPs). The depth of this pocket is an important determinant of the substrate specificity of PTPs. In humans this enzyme is thought to aid bone mineralization and salvage the inositol moiety prior to apoptosis.
Wikipedia: Protein tyrosine phosphatases (EC	3.1.3.48, systematic name protein-tyrosine-phosphate phosphohydrolase) are a group of enzymes that remove phosphate groups from phosphorylated tyrosine residues on proteins:[a protein]-tyrosine phosphate + H2O = [a protein]-tyrosine + phosphate
Pfam PF01830: Peptidase C7 family (family)
This entry represents a peptidase C7 domain, which is found in HAV papain-like proteases p48 and p29 .

Hypoviruses are positive-strand RNA mycoviruses that attenuate virulence of their pathogenic fungal hosts . They employ a gene expression strategy that involves the autocatalytic processing of the N-terminal portion of encoded polyproteins by papain-like protease domains. The prototypic hypovirus CHV-1/EP713, responsible for virulence attenuation (hypovirulence) of the chestnut blight fungus Cryphonectria parasitica, encodes two contiguous open reading frames (ORFs) designated ORF A and ORF B, which contain N-terminal proteases p29 and p48, respectively. Protease p29 functions as a suppressor of the RNA silencing defense response, while p48 is required for viral RNA replication .
Pfam PF23572: GH3 family C-terminal domain (domain)
The GH3 IAA-amido conjugating enzyme family consists of proteins that catalyze the synthesis of amino acid conjugates with indole-3-acetic acid (IAA) or jasmonate (JA), which are plant hormones. This entry represents the C-terminal domain of these enzymes. These enzymes play a crucial role in regulating plant hormone levels by conjugating excess IAA and JA to amino acids, thus providing a mechanism for plants to maintain hormonal homeostasis. The conjugation process is ATP-dependent and involves the adenylation of the hormone followed by the transfer to an amino acid. This family is involved in various plant physiological processes including disease resistance, stamen and carpel differentiation, floret fertility, and response to environmental stresses such as wounding and pathogen attack. Some members also exhibit activity towards synthetic auxins and may confer resistance to herbicides. The family's broad substrate specificity includes various amino acids and analogs of IAA, contributing to the complexity of hormone regulation in plants.
Pfam PF15349: DDB1- and CUL4-associated factor 16 (family)
DCA16 is a family of eukaryotic proteins that interacts with DDB1 and CUL4A. The family may function as a substrate receptor for the CUL4-DDB1 E3 ubiquitin-protein ligase complex.
Pfam PF12733: Cadherin-like beta sandwich domain (domain)
This domain is found in several bacterial, metazoan and chlorophyte algal proteins.  A profile-profile comparison recovered the cadherin domain and a comparison of the predicted structure of this domain with the crystal structure of the cadherin showed a congruent seven stranded secondary structure. The domain is widespread in bacteria and seen in the firmicutes, actinobacteria, certain proteobacteria, bacteroides and chlamydiae with an expansion in Clostridium. In contrast, it is limited in its distribution in eukaryotes suggesting that it was derived through lateral transfer from bacteria. In prokaryotes, this domain is widely fused to other domains such as FNIII (Fibronectin Type III), TIG, SLH (S-layer homology), discoidin, cell-wall-binding repeat domain and alpha-amylase-like glycohydrolases. These associations are suggestive of a carbohydrate-binding function for this cadherin-like domain. In animal proteins it is associated with an ATP-grasp domain.
Pfam PF18867: HEPN-like integron domain (domain)
This is a HEPN-like nuclease. Part of mobile integron element. The integron cassettes are known to be activated by stress conditions, thereby allowing swapping of genetic material that might be of adaptive value. Hence it is hypothesized that the HEPN domains present in some integron cassettes contribute to the stress response by functioning as RNases that induce dormancy by probably inhibiting translation and thus enabling survival of harsh conditions.
Pfam PF11198: Protein of unknown function (DUF2857) (family)
This is a bacterial 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 PF05613: Human herpesvirus U15 protein (family)
U15 is an ORF present in human herpesvirus 6 (HHV-6) that was initially isolated from patients with the AIDS and lymphoproliferative disorders, but was subsequently shown to be responsible for the common childhood disease exanthema subitum (roseola). Several gene fragments of HHV-6 have been shown to activate the human immunodeficiency virus (HIV) type 1 long terminal repeat (LTR) . The ORF U15 encodes a protein of 110 amino acids, whose function in unknown.
Pfam PF19733: Family of unknown function (DUF6223) (family)
This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0001848) is described by MIBiG as an example of the following biosynthetic class, other (unspecified). It includes a  member from the diazaquinomycin H biosynthetic gene cluster from  Micromonospora sp. B006. This family appears to be  predominantly 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.