SII-SWORD/CoKE huggingface dataset:
Pfam PF20771: FAM171A1/A2/B C-terminal (domain)
This is the C-terminal domain of a family of proteins that includes FAM171A1, FAM171A2 and FAM171B. FAM171A1 is a type 1 transmembrane glycoprotein also known as astroprincin (APCN) due to abundant expression in astrocytes. APCN is also expressed in placental trophoblasts, skeletal and heart muscle, kidney and pancreas. APCN is involved in the regulation of the cytoskeletal dynamics, playing a role in actin stress fiber formation.
Pfam PF15698: Phosphatase (family)
Members of this family have phosphatase activity.
Pfam PF05214: Baculovirus P33 (family)
This family consists of a series of Baculovirus P33 protein homologues of unknown function.
Pfam PF03851: UV-endonuclease UvdE (domain)
Proteins in this family are a group of endonucleases for the repair of UV-irradiated DNA. Schizosaccharomyces pombe ultraviolet damage endonuclease (UVDE or Uve1p) is involved in the excision of cyclobutane pyrimidine dimers (CPD) and 6-4 pyrimidine pyrimidones (6-4PP) which forms the UV damage repair (UVDR) pathway. It also functions also in oxidative damage repair in vivo. It provides back-up AP endonuclease activity to apn2 together with apn1. This DNA repair pathway was originally thought to be specific for UV damage, however Uve1p also recognises UV-induced bipyrimidine photoadducts and other non-UV-induced DNA adducts .
Pfam PF13030: Protein of unknown function (DUF3891) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria and archaea. Proteins in this family are approximately 250 amino acids in length.
Pfam PF23463: WWE domain (domain)
This entry represents a set of WWE domains found in fungal proteins that likely have a phospholipase activity.
Pfam PF12456: Inositol phosphatase (domain)
This domain family is found in eukaryotes, and is approximately 120 amino acids in length. The family is found in association with [pfam:PF02383]. hSac2 functions as an inositol polyphosphate 5-phosphatase.
Pfam PF13354: Beta-lactamase enzyme family (domain)
This is the catalytic domain of class A beta-lactamases. It is closely related to Beta-lactamase, [pfam:PF00144], the serine beta-lactamase-like superfamily, which contains the distantly related [pfam:PF00905] and PF00768 D-alanyl-D-alanine carboxypeptidase.
Pfam PF17777: Insertion domain in 60S ribosomal protein L10P (domain)
This domain is found in prokaryotic and archaeal ribosomal L10 protein.
Pfam PF11567: Plasmodium falciparum UIS3 membrane protein (family)
UIS3 is a membrane protein essential for sporozoite development in infected hepatocytes. This family is 130-229 of the Plasmodium falciparum UIS3 protein which is compact and has an all alpha-helical structure.PfUIS3(130-229) interacts with lipids, phospholipid lysosomes, the human liver fatty acid-binding protein and with the lipid phosphatidylethanolamine. The interaction with liver fatty acid-binding protein provides the parasite with a method to import essential fatty acids/lipids during rapid growth phases of sporozoites.
Pfam PF24610: Domain of unknown function (DUF7623) (domain)
Several copies of this domain of unknown function are found in a group of uncharacterised proteins from lower eukaryotes. It is often found associated to [pfam:PF00648] and [pfam:PF01067].
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 PF21298: TopBP1, BRCT0 domain (domain)
TopBP1, also termed DNA topoisomerase II-beta-binding protein 1, functions in DNA replication and damage response. It binds double-stranded DNA breaks and nicks as well as single-stranded DNA. It consists of multiple copies of BRCT domains, with a triple tandem BRCT domains at the N-terminal (designated BRCT0, BRCT1 and BRCT2), also observed in ECT2 that may represent a new type of consecutive BRCT domains. This entry represents the first BRCT domain (BRCT0) of TopBP1. BRCT1/2 are included in [pfam:PF00533]. Although ECT2 and TopBP1 share a similar cylinder-like crystal structure and distribution of secondary structure, some helices exhibit different orientations especially in the BRCT0 domain.
Pfam PF15950: Putative sperm flagellar membrane protein (family)
This presumed domain is functionally uncharacterised. It is found in proteins from arthropods.
Pfam PF20488: Birnavirus RNA dependent RNA polymerase (VP1), thumb domain (domain)
Birnaviruses are dsRNA viruses. The RNA dependent RNA polymerase, also known as VP1, contains the conserved RdRp motifs that reside in the catalytic "palm" domain of all classes of polymerases but in a characteristic permuted order, thus, it adopts a unique active site topology. Additionally, the birnavirus RdRps lack the highly conserved Gly-Asp-Asp (GDD) sequence, a component of the proposed catalytic site of this enzyme family that exists in the conserved motif VI of the palm domain of other RdRps. This entry covers the thumb domain of RdRP from Birnaviruses.
Wikipedia: Birnaviridae is a family of double-stranded RNA viruses. Salmonid fish, birds and insects serve as natural hosts. There are currently 11 species in this family, divided among seven genera. Diseases associated with this family include infectious pancreatic necrosis in salmonid fish, which causes significant losses to the aquaculture industry, with chronic infection in adult salmonid fish and acute viral disease in young salmonid fish.
Pfam PF03305: Mycoplasma MG185/MG260 protein (family)
Most of the aligned regions in this family are found towards the middle of the member proteins.
Pfam PF01182: Glucosamine-6-phosphate isomerases/6-phosphogluconolactonase (domain)
This domain is characteristic of the enzymes 6-phosphogluconolactonase (3.1.1.31), Glucosamine-6-phosphate isomerase (3.5.99.6), and Galactosamine-6-phosphate isomerase. 6-Phosphogluconolactonase is the enzyme responsible for the hydrolysis of 6-phosphogluconolactone to 6-phosphogluconate, the second step in the pentose phosphate pathway. Glucosamine-6-phosphate isomerase (or Glucosamine 6-phosphate deaminase) is the enzyme responsible for the conversion of D-glucosamine 6-phosphate into D-fructose 6-phosphate . It is the last specific step in the pathway for N-acetylglucosamine (GlcNAC) utilization in bacteria such as Escherichia coli (gene nagB) or in fungi such as Candida albicans (gene NAG1).
Pfam PF11094: Membrane-associated tegument protein (family)
The UL11 gene product of herpes simplex virus is a membrane-associated tegument protein that is incorporated into the HSV virion and functions in viral envelopment. UL11 is acylated which is crucial for lipid raft association.
Pfam PF15295: Coiled-coil domain-containing protein 50 N-terminus (coiled_coil)
This entry represents the N-terminal domain of the coiled-coil domain-containing protein 50 (CCDC50). Human CCDC50 is overexpressed in mantle cell lymphoma and chronic lymphocytic leukemia. Its involvement in NFkappaB signalling pathways may have major effects on cell survival .
Wikipedia: Coiled-coil domain-containing protein 50 is a protein that in humans is encoded by the CCDC50 gene.
Pfam PF15825: FAM25 family (family)
FAM25 is a family of proteins found in eukaryotes. Proteins in this family are typically between 54 and 95 amino acids in length. There is a conserved GEK sequence motif. The function is not known.
Pfam PF14426: Immunity protein Imm2 (family)
A predicted Immunity protein, with a mostly all-alpha fold, present  in bacterial polymorphic toxin systems as an immediate gene neighbor  of the toxin gene.
Pfam PF20984: PT26-6P, helical domain (domain)
This domain is found at the C-terminal end of PT26-6P, a large protein encoded by a plasmid from the hyperthermophilic archaea Thermococcus. This protein, present in all members of a family of mobile elements, has homologues in archaeal genomes. This entry represents the third and final domain, which folds as a five-helical bundle that contains five antiparallel helices. Its function is unknown.
Pfam PF13826: Monooxygenase af470-like (domain)
This entry includes Monooxygenase af470-like from Aspergillus fumigatus, which is part of the fma gene cluster that mediates the biosynthesis of fumagillin, a meroterpenoid with numerous biological activities. It has been suggested that af470 mediates the oxidative cleavage of the terminal alkene of the dodecapentaenoate side chain into the carboxylic acid present in fumagillin.
Pfam PF08889: WbqC-like protein family (family)
This family of proteins are functionally uncharacterised. However it is found in an O-antigen gene cluster in E. coli and other bacteria suggesting a role in O-antigen production. Feng et al. suggest that wbnG may code for a glycine transferase.
Pfam PF09639: YjcQ protein (domain)
YjcQ is a protein of approx. 100 residues containing four alpha helices and three beta strands. It is expressed in bacteria and also in viruses. It appears to be under the regulation of SigD RNA polymerase which is responsible for the expression of many genes encoding cell-surface proteins related to flagellar assembly, motility, chemotaxis and autolysis in the late exponential growth phase. The exact function of YjcQ is unknown. However, it is thought to be a prophage head protein in viruses.
Pfam PF08079: Ribosomal L30 N-terminal domain (domain)
This presumed domain is found at the N-terminus of Ribosomal L30 proteins and has been termed RL30NT or NUC018.
Pfam PF17125: N-terminal domain of 16S rRNA methyltransferase RsmF (domain)
This is the N-terminal domain of the RsmF methyl transferase. RsmF is a multi-site-specific methyltransferase that is responsible for the synthesis of three modifications on cytidines in 16S ribosomal RNA. The N-terminus is critical for stabilising the catalytic core of the enzyme. It has a ferredoxin-like fold.
Pfam PF20069: Family of unknown function (DUF6465) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are typically between 117 and 173 amino acids in length. These proteins have a highly charged N-terminus.
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 PF15555: Domain of unknown function (DUF4658) (family)
This family of proteins is found in eukaryotes. Proteins in this family are typically between 129 and 161 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 PF16101: Proline-rich membrane anchor 1 (family)
Proline-rich membrane anchor 1 (PRiMA) is required to organise acetylcholinesterase (ACHE) into tetramers and to anchor them to the basal lamina of the neuromuscular junction and to the membrane of neuronal synapses in brain . ACHE hydrolyses acetylcholine, thereby regulating cholinergic stimulation. The MAP kinase signalling pathway is one of the transcriptional regulators controlling PRiMA gene expression during neuronal differentiation .
Wikipedia: Proline-rich membrane anchor 1, also known as PRiMA, is a protein that in humans is encoded by the PRIMA1 gene.
Pfam PF13434: L-lysine 6-monooxygenase/L-ornithine 5-monooxygenase (family)
This is a family of Rossmann fold oxidoreductases that catalyse NADPH-dependent hydroxylation and are involved in siderophore biosynthesis. This family includes L-ornithine 5-monooxygenase, which catalyses the hydroxylation of L-ornithine at the N5 position, and L-lysine 6-monooxygenase, which catalyses the hydroxylation of lysine at the N6 position ([ec:1.14.13.59]).
Pfam PF07916: TraG-like protein, N-terminal region (family)
The bacterial sequences found in this family are similar to the N-terminal region of the TraG protein ([swissprot:P33790]).  This is a membrane-spanning protein, with three predicted transmembrane segments and two periplasmic regions. TraG protein is known to be essential for DNA transfer in the process of conjugation, with the N-terminal portion being required for F pilus assembly. The protein is thought to interact with the periplasmic domain of TraN ([swissprot:P24082]) to stabilise mating-cell interactions.
Pfam PF22285: Family of unknown function (DUF6962) (family)
This is a family of uncharacterised bacterial proteins. They are related to HlyIII family [pfam:PF03006] and are predicted to adopt the same structure consisting of seven transmembrane helices. Their predicted structure, suggests that, similarly to HlyIII, they may contain a Zn-binding site, albeit slightly rearranged as only two of the Zn-coordinating residues are in conserved positions.
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 PF22467: GLD-3 3rd KH domain (aka KH4) (domain)
This KH domain is found in the C. elegans GLD-3 protein. GLD-3 is a protein required maternally for germline survival and embryogenesis. This domain is known as the KH4 domain based on a prior identification of five KH domains in the GLD-3 protein. However, based on recent structure predictions using AlphaFold is appears that the KH1 domain is not a KH domain at all. Therefore the 3rd KH domain is known as KH4. This is the third KH domain of the globular structure unit also formed by KH2, KH3 and KH5. GLD-3 interacts with the cytoplasmic poly(A)-polymerase GLD-2. The two proteins cooperate to recognize target mRNAs and convert them into a polyadenylated, translationally active state.
Pfam PF25006: Domain of unknown function (DUF7783) (domain)
This domain is found in uncharacterised fungal proteins. It is predicted to fold into a four-helical up-and-down bundle. It has a detectable similarity to Talin 1-like four-helical domains.
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 PF10818: secA translation cis-regulator SecM, small type (family)
In E. coli, SecM encodes a presecretory protein that regulates secA expression at the translational level. SecM contains a C-terminal sequence motif that induces a transient translation arrest. SecM signal peptide plays an essential role in this regulatory process by acting as a molecular timer that coordinates secM membrane targeting with the synthesis of the arrest motif.
Pfam PF20633: Coronavirus Nonstructural protein 13, stalk domain (domain)
Helicase nonstructural protein 13 (NSP13) is encoded by the replicase polyprotein 1a/ab of coronaviruses and released after a proteolytic process. It plays a critical role catalysing the unwinding of duplex oligonucleotides into single strands in a NTP-dependent manner. It is a multidomain protein consisting of a N-terminal zinc-binding domain (ZBD), a stalk domain that connects the ZBD with the 1B domain and the helicase domain (that contains two RecA1 and RecA2 domains). The ZBD, stalk and 1B domains are unique to nidovirus helicases. NSP13 adopts a triangular pyramid shape in which the two RecA1 and A2 and 1B domains form the triangular base while N-terminal ZBD and stalk domains are arranged at the apex of the pyramid. Recently, it has been reported that SARS-CoV-2 NSP13 as an interferon antagonist. This is the stalk domain.
Pfam PF18425: Csp protease B prodomain (domain)
Csp proteases (Csps) and the subtilase protease family Subtilases are serine proteases that contain a catalytic triad in the order of Asp, His and Ser. Structure analysis reveals that Csps are subtilisin-like proteases with two distinctive functional features: a central jellyroll domain and a retained prodomain. The prodomain adopts a similar fold to the prodomains of related subtilisin-like proteases with the C-terminal region extending deep into the catalytic cleft. However, unlike the majority of subtilisin-like proteases, the prodomain stays bound to the subtilase domain via a network of interactions that result in tighter prodomain binding relative to other subtilases. Finally the prodomain acts as both an intramolecular chaperone and an inhibitor of CspB protease activity.
Pfam PF04733: Coatomer epsilon subunit (repeat)
This family represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex.
Pfam PF18904: Domain of unknown function (DUF5660) (domain)
This presumed domain is functionally uncharacterised. This domain family is found in bacteria and fungi, and is approximately 110 amino acids in length.
Pfam PF19585: Family of unknown function (DUF6092) (family)
This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0001986) is described by MIBiG as an example of the following biosynthetic class, other (unspecified). This family  includes a member from the purincyclamide biosynthetic gene cluster from Streptomyces chrestomyceticus and 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.
Pfam PF14033: Protein of unknown function (DUF4246) (domain)
This domain is functionally uncharacterised, found in bacteria and fungi. Proteins in this family are typically between 392 and 644 amino acids in length.  According to structure predictions, this domain may have a cupin-like fold.
Pfam PF24618: Listerin HEAT repeat region (repeat)
This entry represents a putative HEAT repeat from the LTN1 family of proteins.  The LTN1 family consists of E3 ubiquitin-protein ligases that are integral components of the ribosome quality control complex (RQC). The RQC is a ribosome-associated complex responsible for the ubiquitination and subsequent extraction of incompletely synthesized nascent polypeptides for proteasomal degradation. Members of the LTN1 family are recruited to stalled 60S ribosomal subunits, often by NEMF, to mediate the ubiquitination of stalled nascent chains. This ubiquitination event is crucial for the recruitment of VCP/p97 or CDC48, which facilitates the extraction and degradation of the incomplete translation products. In some species, LTN1 proteins also ubiquitinate proteins derived from mRNAs lacking stop codons or translation arrest products induced by specific sequences. Additionally, they may play a role in chromatin function and transcription regulation indirectly.
Pfam PF08161: Ribosomal RNA-processing protein 12, HEAT repeats (repeat)
Ribosomal RNA-processing protein 12 (RRP12) is a member of pre-ribosome-associated HEAT repeats-containing proteins. RRP12 is required for nuclear export of both pre-40S and pre-60S ribosomal subunits, and it is also required for the late maturation of the 18S and 5.8S rRNA of the pre-40S ribosomes and for maturation of the 25S and 5.8S rRNA of the pre-60S ribosomes. This entry represents a conserved domain of RRP12, which consists of HEAT repeats.
Pfam PF20824: CRISPR RNA silencing complex Cmr2 subunit, second helical domain (domain)
The prokaryotic CRISPR RNA-Cas protein (Cmr) complex provides protection against mobile genetic elements by cleaving foreign RNA. Its largest subunit is Cmr2. This protein shows a N-terminal HD (histidine-aspartate) domain, two RRM domains resembling adenylate cyclase and two alpha-helical domains. This entry represents the second alpha-helical domain. It is similar to the small subunit Cmr5, which contains six alpha-helices and two helical insertions that fold into a single globular structure. This domain is also found in Cas10 proteins from bacteria.
Pfam PF19378: Family of unknown function (DUF5953) (family)
This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0001431) is described by MIBiG as an example of the following biosynthetic classes, NRP (non-ribosomal peptide) and polyketide.
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 PF07470: Glycosyl Hydrolase Family 88 (repeat)
Unsaturated glucuronyl hydrolase catalyses the hydrolytic release of  unsaturated glucuronic acids from oligosaccharides ([ec:3.2.1.-]) produced by the reactions of polysaccharide lyases.
Wikipedia: In molecular biology, glycoside hydrolase family 88 is a family of glycoside hydrolases.
Pfam PF04739: 5'-AMP-activated protein kinase beta subunit, interaction domain (family)
This region is found in the beta subunit of the 5'-AMP-activated protein kinase complex, and its yeast homologues Sip1, Sip2 and Gal83, which are found in the SNF1 kinase complex. This region is sufficient for interaction of this subunit with the kinase complex, but is not solely responsible for the interaction, and the interaction partner is not known.  The isoamylase N-terminal domain ([pfam:PF02922]) is sometimes found in proteins belonging to this family.
Wikipedia: 5'-AMP-activated protein kinase subunit beta-1 is an enzyme that in humans is encoded by the PRKAB1 gene.
Pfam PF18768: RNPP family C-terminal domain (repeat)
The bacterial PIcR helix-turn-helix transcription factor includes five TPR units of different lengths. This entry represents the TPR containing domain as a whole. This family is called RNPP after (Rapm NprR, PrgX, and PlcR).
Pfam PF10754: Protein of unknown function (DUF2569) (family)
This family is conserved in bacteria. The function is not known, but several members are annotated as being YdgK or a homologue thereof.
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.