SII-SWORD/CoKE huggingface dataset:
Pfam PF14362: Domain of unknown function (DUF4407) (family)
This family of proteins is found in bacteria. Proteins in this family are typically between 366 and 597 amino acids in length. There is a single completely conserved residue R 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 PF14359: Domain of unknown function (DUF4406) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria and viruses. Proteins in this family are typically between 98 and 145 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 PF07846: Metallothionein family (domain)
The sequences making up Metallothio_Cad are found repeated in metallothionein proteins expressed by several different Tetrahymena species. Metallothioneins are low molecular mass, cysteine-rich metal-binding proteins that are thought to be involved in the regulation of levels of trace metals, and detoxification of these metals when present in excess. Some of the metallothioneins found in this family (for example, [swissprot:Q8T6B3]) are known to be induced by cadmium and are thought to be involved in the cellular sequestration of toxic metal ions. The high proportion of cysteine residues allows the metal ions to be bound by the formation of clusters of metal-thiolate complexes. Tetrahymena spp. metallothioneins differ from other eukaryotic metallothioneins mainly in the length of their sequences and in the cysteine-containing motifs they exhibit.
Pfam PF06924: Protein of unknown function (DUF1281) (family)
This family consists of several hypothetical enterobacterial proteins of around 170 residues in length. Members of this family are found in Escherichia coli, Salmonella typhimurium and Shigella species. 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 PF21338: Bacterial DNA topoisomerase IB, N-terminal domain (domain)
This domain is found at the N-terminal end      of Type I topoisomerase from Deinococcus radiodurans and similar bacterial sequences. This small-sized protein modify DNA topology by cleaving and resealing one strand of duplex DNA. This domain comprises three alpha-helices plus a five strand antiparallel beta-sheet. It is found associated with [pfam:PF01028].
Pfam PF20052: GTPase-associated protein 1, C-terminal domain (repeat)
C-terminal domain found in the multidomain GTPase-associated protein 1 (GAP1) of the GTPase-centric systems, a class of NTP-dependent biological conflict systems. This domain is predicted to mediate effector deployment in the GTPase-centric systems.
Pfam PF15130: Domain of unknown function (DUF4566) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in eukaryotes. This family includes human protein C6orf62.
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 PF10411: Disulfide bond isomerase protein N-terminal domain (domain)
This is the N-terminal domain of the disulfide bond isomerase DsbC. The whole molecule is V-shaped, where each arm is a DsbC monomer of two domains linked by a hinge; and the N-termini of each monomer join to form the dimer interface at the base of the V, so are vital for dimerisation. DsbC is required for disulfide bond formation and functions as a disulfide bond isomerase during oxidative protein-folding in bacterial periplasm. It also has chaperone activity.
Wikipedia: DsbC (Disulfide bond C) is a prokaryotic disulfide bond isomerase. The formation of native disulfide bonds play an important role in the proper folding of proteins and stabilize tertiary structures of the protein. DsbC is one of 6 proteins in the Dsb family in prokaryotes. The other proteins are DsbA, DsbB, DsbD, DsbE and DsbG. These enzymes work in tandem with each other to form disulfide bonds during the expression of proteins. DsbC and DsbG act as proofreaders of the disulfide bonds that are formed. They break non-native disulfide bonds that were formed and act as chaperones for the formation of native disulfide bonds. The isomerization of disulfide bonds occurs in the periplasm.
Pfam PF16700: Synphilin-1 alpha-Synuclein-binding domain (domain)
This coiled-coil domain found in Synphilin-1 is responsible for binding to alpha-Synuclein.
Pfam PF09384: UTP15 C terminal (family)
U3 snoRNA is ubiquitous in eukaryotes and is required for nucleolar processing of pre-18S ribosomal RNA. It is a component of the ribosomal small subunit (SSU) processome. UTP15 is needed for optimal pre-ribosomal RNA transcription by RNA polymerase I, together with a subset of U3 proteins required for transcription (t-UTPs). This entry represents the C terminal of UTP15, and is found adjacent to WD40 repeats ([pfam:PF00400]).
Pfam PF00871: Acetokinase family (family)
This family includes acetate kinase, butyrate kinase and 2-methylpropanoate kinase.
Wikipedia: In molecular biology, acetate kinase (EC 2.7.2.1), which is predominantly found in micro-organisms, facilitates the production of acetyl-CoA by phosphorylating acetate in the presence of ATP and a divalent cation. Short-chain fatty acids (SCFAs) play a major role in carbon cycle and can be utilized as a source of carbon and energy by bacteria. Salmonella typhimurium propionate kinase (StTdcD) catalyzes reversible transfer of the γ-phosphate of ATP to propionate during l-threonine degradation to propionate. Kinetic analysis revealed that StTdcD possesses broad ligand specificity and could be activated by various SCFAs (propionate&gt;acetate≈butyrate), nucleotides (ATP≈GTP&gt;CTP≈TTP; dATP&gt;dGTP&gt;dCTP) and metal ions (Mg2+≈Mn2+&gt;Co2+). Inhibition of StTdcD by tricarboxylic acid (TCA) cycle intermediates such as citrate, succinate, α-ketoglutarate and malate suggests that the enzyme could be under plausible feedback regulation. Crystal structures of StTdcD bound to PO4 (phosphate), AMP, ATP, Ap4 (adenosine tetraphosphate), GMP, GDP, GTP, CMP and CTP revealed that binding of nucleotide mainly involves hydrophobic interactions with the base moiety and could account for the broad biochemical specificity observed between the enzyme and nucleotides. Modelling and site-directed mutagenesis studies suggest Ala88 to be an important residue involved in determining the rate of catalysis with SCFA substrates. Molecular dynamics simulations on monomeric and dimeric forms of StTdcD revealed plausible open and closed states, and also suggested role for dimerization in stabilizing segment 235-290 involved in interfacial interactions and ligand binding. Observation of an ethylene glycol molecule bound sufficiently close to the γ-phosphate in StTdcD complexes with triphosphate nucleotides supports direct in-line phosphoryl transfer. The enzyme is important in the process of glycolysis, enzyme levels being increased in the presence of excess glucose. The growth of a bacterial mutant lacking acetate kinase has been shown to be inhibited by glucose, suggesting that the enzyme is involved in excretion of excess carbohydrate. A related enzyme, butyrate kinase, facilitates the formation of butyryl-CoA by phosphorylating butyrate in the presence of ATP to form butyryl phosphate.
Pfam PF11445: Protein of unknown function (DUF2894) (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 PF06247: Pvs28 EGF domain (domain)
This family consists of several ookinete surface proteins (Pvs28) from several species of Plasmodium. Pvs25 and Pvs28 are expressed on the surface of ookinetes. These proteins are potential candidates for vaccine and induce antibodies that block the infectivity of Plasmodium vivax in immunised animals. The structure of this protein shows it is composed of four EGF domains.
Pfam PF18796: Large polyvalent protein-associated domain 1 (domain)
This is an alpha helical domain with a conserved ExxARxxE motif that is found in polyvalent proteins of both conjugative elements and phages and prophages.
Pfam PF14873: N-terminal domain of BNR-repeat neuraminidase (domain)
This domain is usually found at the N-terminus of the BNR-repeat neuraminidase protein family.
Pfam PF00971: EIAV coat protein, gp90 (family)
Equine infectious anaemia (EIAV). EIAV belongs to the family Retroviridae. EIAV gp90 is hypervariable in the carboxyl-end region and more stable in the amino-end region.  This variability is a pathogenicity factor that allows the evasion of the host's immune response.
Pfam PF15940: Family of unknown function (family)
This family of proteins is found in bacteria. Proteins in this family are approximately 90 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 PF24351: Domain of unknown function (DUF7511) (domain)
This domain is found in a group of uncharacterised archaeal proteins. It is predicted to fold into a three-stranded antiparallel beta-sheet. It contains a highly conserved tryptophan residue located at the beginning of the third beta-strand.
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 PF14469: 28 kDa A-kinase anchor (family)
28 kDa AKAP (AKAP28) is highly enriched in human airway axonemes.  The mRNA for AKAP28 is up-regulated as primary airway cells  differentiate and is specifically expressed in tissues containing  cilia and/or flagella. Homologs of AKAP28 are present in all  animals and in some, including mice the AKAP28-like domain are  preceded by another uncharacterized domain
Pfam PF02245: Methylpurine-DNA glycosylase (MPG) (domain)
Methylpurine-DNA glycosylase is a base excision-repair protein. It is responsible for the hydrolysis of the deoxyribose N-glycosidic bond, excising 3-methyladenine and 3-methylguanine from damaged DNA.
Pfam PF06799: Conserved in the green lineage and diatoms 27 (family)
This family consist of proteins found in plants and algal chloroplasts, and in cyanobacteria. It includes CGLD27 (Conserved in the green lineage and diatoms 27), which has been described as one out of 14 Fe-responsive orthologues in Chlamydomonas and Arabidopsis, indicating that it is an important component of the iron deficiency response of the plant lineage.
Pfam PF02498: BRO family, N-terminal domain (family)
This family includes the N-terminus of baculovirus BRO and ALI motif proteins. The function of BRO proteins is unknown.  It has been suggested that BRO-A and BRO-C are DNA binding proteins that influence host DNA replication and/or transcription. This Pfam domain does not include the characteristic invariant alanine, leucine, isoleucine motif of the ALI proteins.
Pfam PF22859: Induced by infection (family)
This family includes the protein product of the immunity-related lncRNA IBIN from Drosophila melanogaster. Its specific function is unknown.
Pfam PF02456: Adenovirus IVa2 protein (domain)
IVa2 protein can interact with the adenoviral packaging signal and that this interaction involves DNA sequences that have previously been demonstrated to be required for packaging. During the course of lytic infection, the adenovirus major late promoter (MLP) is induced to high levels after replication of viral DNA has started. IVa2 is a transcriptional activator of the major late promoter.
Pfam PF06168: Protein of unknown function (DUF981) (family)
Family of uncharacterised proteins found in bacteria and archaea.
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 PF16515: Clathrin-binding domain of Huntingtin-interacting protein 1 (coiled_coil)
HIP1_clath_bdg is the coiled-coil region of Huntington-interacting proteins 1. It carries a highly conserved HADLLRKN sequence motif at its N-terminus which effects the binding of HIP1R to clathrin light-chain EED regulatory site. this binding then stimulates clathrin lattice assembly. Huntingtin-interacting protein 1 (HIP1) is an obligate binding partner for Huntungtin, and loss of this interaction triggers the cascade of events that results in the apoptosis of neuronal cells and the onset of Hungtinton's disease. Clathrin light-chain binds to a flexible coiled-coil domain in HIP1 and induces a compact state that is refractory to actin binding.
Pfam PF04353: Regulator of RNA polymerase sigma(70) subunit, Rsd/AlgQ (family)
This family includes bacterial transcriptional regulators that are thought to act through an interaction with the conserved region 4 of the sigma(70) subunit of RNA polymerase. The Pseudomonas aeruginosa homologue, AlgQ, positively regulates virulence gene expression and is associated with the mucoid phenotype observed in Pseudomonas aeruginosa isolates from cystic fibrosis patients.
Pfam PF23342: WDR90, 4th beta-propeller (repeat)
This entry represents the fourth beta-propeller found in WD repeat-containing protein 90 from mouse and human, and the orthologue POC16 from Chlamydomonas reinhardtii. WDR90 proteins constitute an evolutionary conserved central core microtubule triplet component that is essential for maintaining the inner centriolar scaffold components in centrioles. POC16 is important for flagellum assembly as two poc16 mutants display shorter flagella and cannot swim.
Wikipedia: The WD40 repeat is a short structural motif of approximately 40 amino acids, often terminating in a tryptophan-aspartic acid (W-D) dipeptide. Tandem copies of these repeats typically fold together to form a type of circular solenoid protein domain called the WD40 domain.
Pfam PF07812: TfuA-like protein (family)
This family consists of a group of sequences that are similar to a region of TfuA protein ([swissprot:Q52872]). This protein is involved in the production of trifolitoxin (TFX), an gene-encoded, post-translationally modified peptide antibiotic. The role of TfuA in TFX synthesis is unknown, and it may be involved in other cellular processes.
Pfam PF02267: ADP-ribosyl cyclase (domain)
ADP-ribosyl cyclase [ec:3.2.2.5] (also know as cyclic ADP-ribose hydrolase or CD38) synthesises cyclic-ADP ribose, a second messenger for glucose-induced insulin secretion.
Wikipedia: Bst1 is an enzyme that in humans is encoded by the BST1 gene. CD157 is a paralog of CD38, both of which are located on chromosome 4 (4p15) in humans.
Pfam PF08587: Ubiquitin associated domain (UBA) (domain)
This is a UBA (ubiquitin associated) domain.  Ubiquitin is involved in intracellular proteolysis.
Pfam PF17785: PUA-like domain (domain)
This PUA-like domain is found at the N-terminus of SAM-dependent methyltransferases.
Pfam PF07335: Fungal chitosanase of glycosyl hydrolase group 75 (family)
This family consists of several fungal chitosanase proteins. Chitin, xylan, 6-O-sulphated chitosan and O-carboxymethyl chitin are indigestible by chitosanase. [ec:3.2.1.132]. The mechanism is likely to be inverting, and the probable catalytic neutrophile base is Asp, with the probable catalytic proton donor being Glu. (see the Chitosanase web-page from CAZY).
Wikipedia: In molecular biology, glycoside hydrolase family 75 is a family of glycoside hydrolases.
Pfam PF11184: Protein of unknown function (DUF2969) (family)
This family of proteins with unknown function appears to be restricted to Lactobacillales.
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 PF18723: 5-hmdU DNA kinase, helical domain (domain)
This entry represents an alpha-helical domain found in 5-hmdU DNA kinase (HMUDK), a P-loop nucleotide kinase that phosphorylates 5-hydroxymethyluracil (5hmdU) into 5-phosphomethyl-2'-deoxyuridine (5-PmdU) on DNA as a step in the pathway leading to thymidine hypermodifications in the viral genome. HMUDK also transfers glutamate to 5-pyrophosphoryloxymethyldeoxyuridine (5-PPmdU) to produce 5-Nalpha-glyutamylthymidine (Nalpha-GluT). These modifications probably prevent degradation of viral genome by the host restriction-modification antiviral defense system. Members of this entry (formerly known as aGPT-Pplase1) are found in phages with hypermodified bases and eukaryotes such as fungi and stramenopiles.
Pfam PF04870: Moulting cycle (family)
This family of proteins plays a role in the moulting cycle of nematodes, which involves the synthesis of a new collagen-rich cuticle underneath the existing cuticle and the subsequent removal of the old cuticle.
Pfam PF08174: Cell division protein anillin (domain)
Anillin is a protein involved in septin organisation during cell division.              It is an actin binding protein that is localised to the cleavage furrow, and it maintains the localisation of active myosin, which ensures the spatial control of concerted contraction during cytokinesis.
Pfam PF23326: UBAC1 UBL-like domain (domain)
This domain is found in the human Ubiquitin-associated domain-containing protein 1 (UBAC1) and related proteins. UBAC1 is a non-catalytic component of the KPC complex, a E3 ubiquitin-protein ligase complex that mediates polyubiquitination of target proteins, such as CDKN1B and NFKB1. Within the KPC complex, UBAC1 acts as an adapter that promotes the transfer of target proteins that have been polyubiquitinated by RNF123/KPC1 to the 26S proteasome. This domain shares significant sequence similarity to ubiquitin-like domains and it is predicted to adopt similar structure with ubuquitin fold topology.
Pfam PF22338: Pyruvate-ferredoxin oxidoreductase, insertion domain (domain)
This entry represents the insertion domain of Pyruvate-flavodoxin oxidoreductases, which adopts a four helical bundle fold.
Pfam PF09614: CRISPR-associated protein (Cas_Csy2) (family)
CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) is a widespread family of prokaryotic direct repeats with spacers of unique sequence between consecutive repeats. This entry, typified by YPO2464 of Yersinia pestis, is a CRISPR-associated (Cas) entry strictly associated with the Ypest subtype of CRISPR/Cas locus. It is designated Csy2, for CRISPR/Cas Subtype Ypest protein 2.
Pfam PF11377: Protein of unknown function (DUF3180) (family)
Some members in this family of proteins are annotated as membrane proteins however this cannot be confirmed. Currently there is 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 PF16094: Proteasome assembly chaperone 4 (family)
PAC1 is a family of eukaryotic proteasome assembly chaperone 1 proteins in eukaryotes that promotes assembly of the core 20S proteasome as part of a heterodimer with PAC2.
Pfam PF23721: Family of unknown function (DUF7162) (family)
This protein family includes a group of uncharacterised short sequences from actinobacteria. Some members are annotated as ESX-1 secretion-associated proteins. They are predicted to adopt a mainly alpha-helical configuration.
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 PF02362: B3 DNA binding domain (family)
This is a family of plant transcription factors with various roles in development, the aligned region corresponds the B3 DNA binding domain as described in this domain is found in VP1/AB13 transcription factors.  Some proteins also have a second AP2 DNA binding domain [pfam:PF00847] such as RAV1 [swissprot:Q9ZWM9]. DNA binding activity was demonstrated by.
Wikipedia: The B3 DNA binding domain (DBD) is a highly conserved domain found exclusively in transcription factors combined with other domains. It consists of 100-120 residues, includes seven beta strands and two alpha helices that form a DNA-binding pseudobarrel protein fold ; it interacts with the major groove of DNA.
Pfam PF23028: C2 domain-containing protein 5, fifth YbjQ-like domain (domain)
This domain is found in human C2 domain-containing protein 5 (C2CD5) and similar proteins mainly from animals. C2CD5 is required for insulin-stimulated glucose transport and glucose transporter SLC2A4/GLUT4 translocation to the plasma membrane in adipocytes. This domain is predicted to show a beta-sheet and an alpha-helix.