SII-SWORD/CoKE huggingface dataset:
Pfam PF09868: Uncharacterized protein conserved in archaea (DUF2095) (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 PF24718: HTH-like domain (domain)
This entry represents a family of uncharacterised bacterial proteins. Proteins in this family are approximately 80 amino acids in length. These proteins structurally resemble a HTH domain. They are often found genomically associated with likely restriction modification systems. Structure prediction suggests that these domains homodimerise and bind to the major groove of double-stranded DNA.
Pfam PF01239: Protein prenyltransferase alpha subunit repeat (repeat)
Both farnesyltransferase (FT) and geranylgeranyltransferase 1 (GGT1) recognise a CaaX motif on their substrates where 'a' stands for preferably aliphatic residues, whereas GGT2 recognises a completely different motif. Important substrates for FT include, amongst others, many members of the Ras superfamily. GGT1 substrates include some of the other small GTPases and GGT2 substrates include the Rab family.
Pfam PF22286: Rho GTPase-activating protein 20, PH domain (domain)
This entry represents the PH domain of RHG20 (Rho GTPase-activating protein 20), a protein that is thought to function in rearrangements of the cytoskeleton and cell signalling events that occur during spermatogenesis. It is activated by Rap1 and to induce inactivation of Rho, resulting in the neurite outgrowth.
Pfam PF24529: Cilia- and flagella-associated protein 47 domain (domain)
This domain is found in human Cilia- and flagella-associated protein 47 (CFAP47) and similar proteins mainly from animals. CFAP47 plays a role in flagellar formation and sperm motility. This domain is usually found associated with [pfam:PF22544].
Pfam PF02838: Glycosyl hydrolase family 20, domain 2 (domain)
This domain has a zincin-like fold.
Wikipedia: In molecular biology, glycoside hydrolase family 20 is a family of glycoside hydrolases.
Pfam PF08179: Small acid-soluble spore protein P family (family)
This family consists of the small acid-soluble spore proteins (SASP) P type (sspP). sspP is expressed only in the forespore compartment of the sporulating cell. sspP is also expressed under sigma-G control from the same promoter as sspO. Mutations deleting sspP causes no discernible effect on sporulation, spore properties or spore germination.
Pfam PF19518: p190RhoGAP, pG1 and pG2 domains (domain)
The p190RhoGAP (GTPase-activating protein) proteins, p190RhoGAP-A (ARHGAP35) and p190RhoGAP-B (ARHGAP5)4-6, regulates Rho GTP hydrolysis and are important for proper Rho signalling. They share a domain organisation containing a GTP-binding GTPase domain, four FF domains, two GTPase-like folds (pG1 and pG2) in the middle domain and a C-terminal GAP domain. This entry represents pG1 and pG2 which are important for GAP activity toward RhoA and were classified as pseudoGTPases as they lack nucleotide-binding activity. Crystal structures revealed a small GTPase fold in both cases with a central 6-stranded beta-sheet surrounded by four alpha-helices.
Pfam PF24057: Domain of unknown function (DUF7358) (domain)
This domain is found in uncharacterised proteins from plants. It is predicted to adopt an alpha-helical bundle with ferritin-like topology. This domain is frequently found in combination with [pfam:PF01764].
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 PF19133: Family of unknown function (DUF5816) (family)
This is a family of proteins predominantly found in Halobacteria. They are thought to be GNAT (Gcn5-related N-acetyltransferases) family acetyltransferases.
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 PF11996: Protein of unknown function (DUF3491) (family)
This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 286 to 3225 amino acids in length. This protein is found associated with [pfam:PF04488]. This protein is found associated with [pfam:PF04488].
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 PF15957: Commissureless (family)
Commissureless regulates Roundabout (Robo) levels and as a result regulates controls axon guidance across the embryo midline.
Pfam PF02380: T-antigen specific domain (family)
This domain represents a conserved region in papovavirus small and middle T-antigens. It is found as the N-terminal domain in the small T-antigen, and is centrally located in the middle T-antigen.
Pfam PF12536: Patatin phospholipase (family)
This domain family is found in bacteria, and is approximately 110 amino acids in length. The family is found in association with [pfam:PF01734]. There are two completely conserved residues (F and G) that may be functionally important. The proteins in this family are frequently annotated as patatin family phospholipases 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 PF20567: Family of unknown function (DUF6776) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are typically between 234 and 251 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 PF15544: Bacterial toxin 6 (family)
A predicted RNase toxin found in bacterial polymorphic toxin systems.  The toxin possesses an alpha+beta fold that is usually exported by the Photorhabdus virulence cassette (PVC)-type export system.
Pfam PF21060: Reovirus core-spike protein lambda-2 (L2), 6th domain (domain)
Reovirus core-spike protein VP1/lambda-2 (VP1/L2) forms a pentamer that mediates enzymatic reactions in 5' capping of the viral plus-strand transcripts. It forms a hollow cylinder with projecting turrets. Each VP1/L2 monomer consists of eight domains with the most N-terminal domain at the base of the turret and the most C-terminal domain at the top. This entry represents the sixth domain which, together with the seventh and eighth ([pfam:PF06016]) domains forms a three-domain flap at the top of the turret, that may serve as a gate to retard exit of the 5' terminus of the mRNA. This domain has a Ig-like fold, resembling the V of an antibody light chain.
Pfam PF10155: CCR4-NOT transcription complex subunit 11 (family)
This is a family of unknown function found in eukaryotes. Family members include CNOT 11 a subunit of the CCR4-NOT. CNOT11 was shown to interact with the first amino acids of CNOT1 and with CNOT10 and to be required for the association of CNOT10 with the CCR4-NOT complex.
Pfam PF18656: Family of unknown function (DUF5633) (repeat)
This entry represents a 40 residue repeat that is often found in tandem in a small set of bacterial cell surface proteins. The function of this region is not known.
Pfam PF12430: Abscisic acid G-protein coupled receptor (family)
This domain family is found in eukaryotes, and is typically between 177 and 216 amino acids in length. This family is part of the abscisic acid (ABA) G-protein coupled receptor. ABA is a stress hormone in plants.
Pfam PF09790: Hyccin (repeat)
Members of this family of proteins may have a role in the beta-catenin-Tcf/Lef signaling pathway, as well as in the process of myelination of the central and peripheral nervous system. Defects in Hyccin are the cause of hypomyelination with congenital cataracts [MIM:610532]. This disorder is characterised by congenital cataracts, progressive neurologic impairment, and diffuse myelin deficiency. Affected individuals experience progressive pyramidal and cerebellar dysfunction, muscle weakness and wasting prevailing in the lower limbs.
Wikipedia: In molecular biology, the hyccin protein family is a family of proteins which may have a role in the beta-catenin-Tcf/Lef signaling pathway, as well as in the process of myelination of the central and peripheral nervous system. One member of this family is hyccin, encoded by the FAM126A gene. Defects in Hyccin are the cause of Hypomyelination and Congenital Cataract (HCC), also called leukodystrophy hypomyelinating type 5 (HLD5). This disorder is characterised by congenital cataracts, progressive neurologic impairment, and diffuse myelin deficiency. Affected individuals experience progressive pyramidal and cerebellar dysfunction, muscle weakness and wasting prevailing in the lower limbs.
Pfam PF13649: Methyltransferase domain (domain)
This family appears to be a methyltransferase domain.
Pfam PF02510: Surface presentation of antigen domain (domain)
Surface presentation of antigens protein (SPAN), also know as invasion protein invJ, is a Salmonella secretory pathway protein involved in presentation of determinants required for mammalian host cell invasion. This entry represents a C-terminal domain found in these proteins. This domain is composed of a 4-stranded beta sheet followed by an alpha helix.
Pfam PF15245: Transcription cofactor vestigial-like protein 4 (family)
These proteins act as transcriptional enhancer factor (TEF-1) cofactors.
Pfam PF22821: Zona pellucida sperm-binding proteins 1/4, Ig-like domain (domain)
This entry represents an immunoglobulin-like domain found in the N-terminal region of Zona pellucida sperm-binding proteins 1 and 4 (ZP1 and ZP4). ZP1 and ZP4 are components of the zona pellucida, an extracellular matrix surrounding oocytes which mediates sperm binding, induction of the acrosome reaction and prevents post-fertilization polyspermy.
Pfam PF24452: Family of unknown function (DUF7568) (family)
This entry represents a small family of uncharacterised proteins found in Halobacteria. They contain two pairs of conserved cysteines that are likely involved in metal coordination. These proteins are predicted to contain two subdomains one of which is consisting of a five-stranded antiparallel beta-sheet and a helix packed on it followed by a zinc beta-ribbon domain.
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 PF20646: Hpf1 C-terminal YTTT repeat (family)
This entry represents a short sequence repeat found at the C-terminus of the yeast Haze protective factor 1 [swissprot:Q05164]. AlphaFold predicts this repeat to adopt a beta hairpin structure.  This repeat is found in multiple copies in a range of fungal species.
Pfam PF15259: G-2 and S-phase expressed 1 (family)
This family is the N-terminus of GTSE1 proteins. GTSE-1 (G2 and S phase-expressed-1) protein is specifically expressed during S and G2 phases of the cell cycle. It is mainly localised to the microtubules and when overexpressed delays the G2 to M transition. the full protein negatively regulates p53 transactivation function, protein levels, and p53-dependent apoptosis.  This domain family is found in eukaryotes, and is approximately 140 amino acids in length. There is a conserved FDFD sequence motif.
Pfam PF23445: Winged Helix-turn-helix domain (domain)
This entry represents a winged Helix-Turn-Helix domain found in a variety of helicase enzymes.
Pfam PF00828: Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27A (domain)
This family includes higher eukaryotic ribosomal 60S L27A, archaeal 50S L18e, prokaryotic 50S L15, fungal mitochondrial L10, plant L27A, mitochondrial L15 and chloroplast L18-3 proteins.
Pfam PF12969: Domain of Unknown Function with PDB structure (DUF3857) (family)
This family is based on the first domain of the PDB structure PDB:3KD4(residues 1-228). It is structurally similar to domains in other hydrolases, eg. M1 family aminopeptidase (3ebi, Z=10, rmsd 3.6A for 152 CA, seq id 12%), despite lack of any significant sequence similarity.
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 PF01051: Initiator Replication protein, WH1 (domain)
This protein is an initiator of plasmid replication. RepB possesses nicking-closing (topoisomerase I) like activity. It is also able to perform a strand transfer reaction on ssDNA that contains its target. This entry also includes RepA which is an E.coli protein involved in plasmid replication. The RepA protein binds to DNA repeats that flank the repA gene. These proteins consist of two domains containing a winged helix-turn-helix motif, the N-terminal one, WH1, represented in this entry, is involved in the dimerization of RepE and an auxiliary binding to DNA. The C-terminal one, WH2, is related to a sequence-specific binding to the common 8 bp of the iteron.
Pfam PF17757: UvrB interaction domain (domain)
This domain is found in the UvrB protein where it interacts with the UvrA protein.
Pfam PF01306: LacY proton/sugar symporter (family)
This family is closely related to the sugar transporter family.
Wikipedia: Lactose permease is a membrane protein which is a member of the major facilitator superfamily. Lactose permease can be classified as a symporter, which uses the proton gradient towards the cell to transport β-galactosides such as lactose in the same direction into the cell.
Pfam PF15128: T-cell leukemia translocation-altered (family)
This family of proteins is required for osteoclastogenesis.
Pfam PF03241: 4-hydroxyphenylacetate 3-hydroxylase C terminal (family)
HpaB [swissprot:Q57160] encodes part of the 4-hydroxyphenylacetate 3-hydroxylase from Escherichia coli. HpaB is part of a heterodimeric enzyme that also requires HpaC. The enzyme is NADH-dependent and uses FAD as the redox chromophore. This family also includes PvcC [swissprot:O30372] may play a role in one of the proposed hydroxylation steps of pyoverdine chromophore biosynthesis.
Pfam PF09562: LlaMI restriction endonuclease (family)
This family includes the LlaMI (recognises and cleaves CC^NGG) restriction endonuclease.
Pfam PF08438: Obg-like GTPase YGR210-like, G4 motif-containing domain (domain)
This domain is part of the G domain found at the C-terminus of [pfam:PF01926] in archaeal and eukaryotic GTP-binding proteins. Members of this entry form a subfamily within the Obg family of GTPases and includes YGR210 from yeasts and its homologues from archaea. This domain seems to be necessary for the complete activity of the protein for binding of both adenine and guanine nucleotides, with a preference for guanine nucleotides. This domain contains the NKxD motif, known as the G4 motif.
Pfam PF21744: BAHCC1-like, Tudor domain (domain)
This entry represents the Tudor domain found in BAHCC1 and TNRC18 from mammals and winged eye, the orthologue from Drosophila. BAHCC1, may function as a transcriptional regulator. BAHCC1 contains a Tudor domain and a C-terminal BAH domain. This protein specifically recognises H3K27me3 through its BAH module ([pfam:PF01426]) and enforces silencing of H3K27me3-demarcated genes in mammalian cells. TNRC18 is thought to enable chromatin binding activity, however, its function is not yet unknown. Winged eye is a factor that induces eye-to-wing transdetermination upon overexpression in eye imaginal discs. It induces various histone modifications and enhances the methylation of Lys9 on histone H3 (H3K9). This domain may be implicated in the interactions with methylated histone.
Pfam PF00477: Small hydrophilic plant seed protein (disordered)
LEA (late embryogenesis abundant) proteins were first identified in land plants. Plant LEA proteins have been found to accumulate to high levels during the last stage of seed formation (when a natural desiccation of the seed tissues takes place) and during periods of water deficit in vegetative organs. Later, LEA homologues have also been found in various species . They have been classified into several subgroups in Pfam and according to Bray and Dure .
This entry represents Pfam LEA_5, or D-19 from Dure, or group 1 from Bray. Proteins in this entry includes EM1 (At3g51810) and EM6 (At2g40170) from Arabidopsis . This entry also includes some bacterial hydrophilins. Some proteins in this entry also contain the KGG motif (IPR019626).
Wikipedia: Plant seed proteins are small hydrophilic proteins. They represent a subset of late embryogenesis abundant proteins, of Dure subfamily D-19 or Bray group 1. These proteins contain from 73 to 153 amino acid residues and may play a role in equipping the seed for survival, maintaining a minimal level of hydration in the dry organism and preventing the denaturation of cytoplasmic components. They may also play a role during imbibition by controlling water uptake.
Pfam PF24469: F54D1.6, C-terminal domain (domain)
This domain is found towards the C-terminal end of the uncharacterised protein F54D1.6 from Caenorhabditis elegans and similar animal sequences. It is often found associated to [pfam:PF06119].
Pfam PF24903: MEIOB, N-terminal (domain)
This domain is found at the N-terminal end of human Meiosis -specific with OB domain-containing protein (MEIOB). This domain is predicted to adopt an OB fold.
Pfam PF18054: CEL-III C-terminal (domain)
This is the C-terminal domain found in Cucumaria echinata CEL-III protein which is a lectin that exhibits both hemolytic and hemagglutinating activity. The domain is responsible for oligomerization and insertion of CEL-III into the erythrocyte membrane. The domain is composed of eight stranded beta sandwich and two alpha helices, the latter changes conformation upon binding to the cell surface carbohydrates.
Pfam PF13611: Serine peptidase of plant viral polyprotein, P1 (domain)
This family is the P1 protein of the Potyviridae polyproteins that is a serine peptidase at the N-terminus. The catalytic triad in [swissprot:Q65730], the ssRNA positive-strand Brome streak mosaic rymovirus, is His-311, Asp-322 and Ser-355.
Pfam PF14340: Domain of unknown function (DUF4395) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria and eukaryotes. Proteins in this family are typically between 142 and 168 amino acids in length. There are two completely conserved C residues 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 PF24253: Domain of unknown function (DUF7454) (domain)
This entry represents a small family of uncharacterised proteins from a set of mycobacterial phage including phage Bxb1 (gene 86). The members of the family range in length from 50 to 90 residues. Structurally, the domain shows some weak similarity to the N-terminal domain of IF5, which adopts an SH3 like barrel 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 PF16504: Putative virion membrane protein of plant and insect virus (family)
SP24, or structural protein of 24kD, is a family of putative virion membrane proteins of plant and insect viruses. These viruses are ssRNA positive-strand viruses, with no DNA stage. The family corresponds to the central region of the ORF3 of insect chroparaviruses and negeviruses and plant cileviruses, higreviruses and blunerviruses. It contains four transmembrane regions. Chronic bee paralysis virus (CBPV) is one of the more common member virions. SP24 is probably one of the major structural components of the virions.