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Category: OntologyTerm
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Type Details Score
Ontology Term
Pfam:PF13716 | Divergent CRAL/TRIO domain
Description: This family includes divergent members of the CRAL-TRIO domain family. This family includes ECM25 that contains a divergent CRAL-TRIO domain identified by Gallego and colleagues [1].
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Ontology Term
Pfam:PF02577 | Bifunctional nuclease domain
Description: This entry represents the bifunctional nuclease (BFN) domain which is specific to bacteria and plant organisms. It has both RNase and DNase activities [1]. The dimer of the BFN domain forms a wedge, each monomer being a basic triangular shape. The BFN domain is composed of an eight-stranded, distorted beta-sheet consisting of a four-stranded antiparallel beta-sheet, and a four-stranded mixed beta-sheet. This domain can be found in M. tuberculosis Carbon monoxide resistance (Cor) proteins. Cor consists entirely of this domain with homologues in a variety of organisms, including most mycobacteria, Bacteroides sp., Chlamydia sp., Streptomyces sp., and Rhodococcussp. One of the homologs from Oryza minuta protein OmBBD was reported to exhibit DNase and RNAse activity in vitro [1]. OmBBD carries a C-terminal UvrB domain that is absent in the mycobacterial sequences. UvrB is one component of the UvrABC endonuclease system. Hence, it was proposed that OmBBD's observed nuclease activity may come not from this domain but from an interaction of the C-terminal UvrB with the catalytic UvrC nuclease [2].
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Ontology Term
PANTHER:PTHR15241 | TRANSFORMER-2-RELATED
 
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Ontology Term
PANTHER:PTHR15241:SF0 | TRANSFORMER-2 SEX-DETERMINING PROTEIN
 
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Ontology Term
PANTHER:PTHR18896 | PHOSPHOLIPASE D
 
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Ontology Term
Pfam:PF00614 | Phospholipase D Active site motif
Description: Phosphatidylcholine-hydrolysing phospholipase D (PLD) isoforms are activated by ADP-ribosylation factors (ARFs). PLD produces phosphatidic acid from phosphatidylcholine, which may be essential for the formation of certain types of transport vesicles or may be constitutive vesicular transport to signal transduction pathways. PC-hydrolysing PLD is a homologue of cardiolipin synthase, phosphatidylserine synthase, bacterial PLDs, and viral proteins. Each of these appears to possess a domain duplication which is apparent by the presence of two motifs containing well-conserved histidine, lysine, and/or asparagine residues which may contribute to the active site. aspartic acid. An E. coli endonuclease (nuc) and similar proteins appear to be PLD homologues but possess only one of these motifs. The profile contained here represents only the putative active site regions, since an accurate multiple alignment of the repeat units has not been achieved.
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Ontology Term
Pfam:PF12357 | Phospholipase D C terminal
Description: This domain family is found in eukaryotes, and is approximately 70 amino acids in length. The family is found in association with Pfam:PF00168, Pfam:PF00614. There is a conserved FPD sequence motif. This family is the C terminal of phospholipase D. PLD is a major plant lipid-degrading enzyme which is involved in signal transduction.
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Ontology Term
PANTHER:PTHR19376 | DNA-DIRECTED RNA POLYMERASE
 
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Ontology Term
Pfam:PF00623 | RNA polymerase Rpb1, domain 2
Description: RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). This domain, domain 2, contains the active site. The invariant motif -NADFDGD- binds the active site magnesium ion [1,2].
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Ontology Term
Pfam:PF04983 | RNA polymerase Rpb1, domain 3
Description: RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). This domain, domain 3, represents the pore domain. The 3' end of RNA is positioned close to this domain. The pore delimited by this domain is thought to act as a channel through which nucleotides enter the active site and/or where the 3' end of the RNA may be extruded during back-tracking [1,2].
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Ontology Term
Pfam:PF04990 | RNA polymerase Rpb1, domain 7
Description: RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). This domain, domain 7, represents a mobile module of the RNA polymerase. Domain 7 forms a substantial interaction with the lobe domain of Rpb2 (Pfam:PF04561) [1,2].
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Ontology Term
Pfam:PF04992 | RNA polymerase Rpb1, domain 6
Description: RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). This domain, domain 6, represents a mobile module of the RNA polymerase. Domain 6 forms part of the shelf module [1,2]. This family appears to be specific to the largest subunit of RNA polymerase II.
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Ontology Term
Pfam:PF04997 | RNA polymerase Rpb1, domain 1
Description: RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). This domain, domain 1, represents the clamp domain, which a mobile domain involved in positioning the DNA, maintenance of the transcription bubble and positioning of the nascent RNA strand [1,2].
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Ontology Term
Pfam:PF05000 | RNA polymerase Rpb1, domain 4
Description: RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). This domain, domain 4, represents the funnel domain. The funnel contain the binding site for some elongation factors [1,2].
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Ontology Term
PANTHER:PTHR10869 | PROLYL 4-HYDROXYLASE ALPHA SUBUNIT
 
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Ontology Term
Pfam:PF13640 | 2OG-Fe(II) oxygenase superfamily
Description: This family contains members of the 2-oxoglutarate (2OG) and Fe(II)-dependent oxygenase superfamily [1].
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Ontology Term
PANTHER:PTHR11670 | ACONITASE/IRON-RESPONSIVE ELEMENT FAMILY MEMBER
 
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Ontology Term
PANTHER:PTHR11670:SF1 | IRON REGULATORY PROTEIN 1A-RELATED
 
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Ontology Term
Pfam:PF00330 | Aconitase family (aconitate hydratase)
Description: NULL
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Ontology Term
Pfam:PF00694 | Aconitase C-terminal domain
Description: Members of this family usually also match to Pfam:PF00330. This domain undergoes conformational change in the enzyme mechanism [1].
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Ontology Term
Pfam:PF13441 | YMGG-like Gly-zipper
Description: NULL
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Ontology Term
PANTHER:PTHR31235 | PEROXIDASE 25-RELATED
 
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Ontology Term
PANTHER:PTHR14614 | HEPATOCELLULAR CARCINOMA-ASSOCIATED ANTIGEN
 
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Ontology Term
Pfam:PF04749 | PLAC8 family
Description: This family includes Swiss:Q9NZF1, the Placenta-specific gene 8 protein.
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Ontology Term
PANTHER:PTHR11099 | VACUOLAR SORTING PROTEIN 35
 
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Ontology Term
Pfam:PF03635 | Vacuolar protein sorting-associated protein 35
Description: Vacuolar protein sorting-associated protein (Vps) 35 is one of around 50 proteins involved in protein trafficking. In particular, Vps35 assembles into a retromer complex with at least four other proteins Vps5, Vps17, Vps26 and Vps29. Vps35 contains a central region of weaker sequence similarity, thought to indicate the presence of at least three domains[1].
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Ontology Term
PANTHER:PTHR24072 | RHO FAMILY GTPASE
 
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Ontology Term
Pfam:PF01761 | 3-dehydroquinate synthase
Description: The 3-dehydroquinate synthase EC:4.6.1.3 domain is present in isolation in various bacterial 3-dehydroquinate synthases and also present as a domain in the pentafunctional AROM polypeptide Swiss:P07547 [2]. 3-dehydroquinate (DHQ) synthase catalyses the formation of dehydroquinate (DHQ) and orthophosphate from 3-deoxy-D-arabino heptulosonic 7 phosphate [1]. This reaction is part of the shikimate pathway which is involved in the biosynthesis of aromatic amino acids.
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Ontology Term
PANTHER:PTHR21450 | UNCHARACTERIZED
 
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Ontology Term
Pfam:PF04783 | Protein of unknown function (DUF630)
Description: This region is sometimes found at the N-terminus of putative plant bZIP proteins. Its function is not known. Structural modelling suggests this domain may bind nucleic acids [1].
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Ontology Term
PANTHER:PTHR31356 | THYLAKOID LUMENAL 29 KDA PROTEIN, CHLOROPLASTIC-RELATED
 
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Ontology Term
PANTHER:PTHR31356:SF0 | L-ASCORBATE PEROXIDASE 3, PEROXISOMAL-RELATED
 
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Ontology Term
Pfam:PF02518 | Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
Description: This family represents the structurally related ATPase domains of histidine kinase, DNA gyrase B and HSP90.
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Ontology Term
Pfam:PF06911 | Senescence domain
Description: This is the AAA ATPase senescence domain (SC) found at the C-terminal of plant senescence-associated proteins and spartin. In Hemerocallis, petals a genetically based program that leads to senescence and cell death approximately 24 hours after the flower opens, and it is believed that senescence proteins produced around that time have a role in this program [1]. This domain is also present at the C-terminal of Spartin, a protein from higher vertebrates associated with mitochondrial membranes and transportation along microtubules [2]. Spartin functions presynaptically with endocytic adaptor Eps15 to regulate synaptic growth and function. Mutations in human spartin gene cause Troyer syndrome, a hereditary spastic paraplegia [3]. This AAA ATPase domain, similar to other AAA proteins contain an alpha/beta nucleotide-binding domain (NBD) and a smaller four-helix bundle domain (HBD) [4]. Uniquely among AAA structures, spastin has two helices (N-terminal alpha1 and C-terminal alpha11) hat embrace the NBD [4].
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Ontology Term
PANTHER:PTHR11607 | ALPHA-MANNOSIDASE
 
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Ontology Term
PANTHER:PTHR11607:SF3 | ALPHA-MANNOSIDASE 2-RELATED
 
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Ontology Term
Pfam:PF01074 | Glycosyl hydrolases family 38 N-terminal domain
Description: Glycosyl hydrolases are key enzymes of carbohydrate metabolism.
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Ontology Term
Pfam:PF07748 | Glycosyl hydrolases family 38 C-terminal domain
Description: Glycosyl hydrolases are key enzymes of carbohydrate metabolism.
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Ontology Term
Pfam:PF09261 | Alpha mannosidase middle domain
Description: Members of this family adopt a structure consisting of three alpha helices, in an immunoglobulin/albumin-binding domain-like fold. They are predominantly found in the enzyme alpha-mannosidase [1].
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Ontology Term
PANTHER:PTHR10223 | 26S PROTEASOME NON-ATPASE REGULATORY SUBUNIT 4
 
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Ontology Term
Pfam:PF02809 | Ubiquitin interaction motif
Description: This motif is called the ubiquitin interaction motif. One of the proteins containing this motif is a receptor for poly-ubiquitination chains for the proteasome [1]. This motif has a pattern of conservation characteristic of an alpha helix.
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Ontology Term
PANTHER:PTHR31942:SF1 | MLO-LIKE PROTEIN 11-RELATED
 
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Ontology Term
Pfam:PF13202 | EF hand
Description: NULL
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Ontology Term
PANTHER:PTHR11139 | ATAXIA TELANGIECTASIA MUTATED ATM -RELATED
 
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Ontology Term
PANTHER:PTHR11139:SF1 | TRANSFORMATION/TRANSCRIPTION DOMAIN-ASSOCIATED PROTEIN
 
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Ontology Term
Pfam:PF00454 | Phosphatidylinositol 3- and 4-kinase
Description: Some members of this family probably do not have lipid kinase activity and are protein kinases, e.g. Swiss:P42345 [1].
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Ontology Term
Pfam:PF02259 | FAT domain
Description: The FAT domain is named after FRAP, ATM and TRRAP.
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Ontology Term
PANTHER:PTHR12377 | UNCHARACTERIZED
 
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Ontology Term
PANTHER:PTHR12377:SF0 | CYTOSOLIC IRON-SULFUR ASSEMBLY COMPONENT 2B
 
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Ontology Term
PANTHER:PTHR31580 | FILAMENT-LIKE PLANT PROTEIN 4
 
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Ontology Term
Pfam:PF05911 | Filament-like plant protein, long coiled-coil
Description: FPP is a family of long coiled-coil plant proteins that are filament-like. It interacts with the nuclear envelope-associated protein, MAF1, the WPP family Pfam:PF13943.
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Ontology Term
PANTHER:PTHR13691:SF4 | SUBFAMILY NOT NAMED
 
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Ontology Term
Pfam:PF00181 | Ribosomal Proteins L2, RNA binding domain
Description: NULL
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Ontology Term
PANTHER:PTHR10263 | V-TYPE PROTON ATPASE PROTEOLIPID SUBUNIT
 
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Ontology Term
PANTHER:PTHR10263:SF2 | V-TYPE PROTON ATPASE 16 KDA PROTEOLIPID SUBUNIT
 
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Ontology Term
Pfam:PF11995 | Domain of unknown function (DUF3490)
Description: This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is about 160 amino acids in length. This domain is found associated with Pfam:PF00225. This domain is found associated with Pfam:PF00225. This domain has two conserved sequence motifs: EVE and ESA.
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Ontology Term
PANTHER:PTHR31832 | B-BOX ZINC FINGER PROTEIN 22
 
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Ontology Term
Pfam:PF00643 | B-box zinc finger
Description: NULL
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Ontology Term
PANTHER:PTHR13465 | UPF0183 PROTEIN
 
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Ontology Term
Pfam:PF03676 | Phagosome assembly factor 1
Description: PHAF1 and BCAS3 form a complex that affects the recruitment of several core autophagy proteins to the phagophore assembly site [1].
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Ontology Term
Pfam:PF02213 | GYF domain
Description: The GYF domain is named because of the presence of Gly-Tyr-Phe residues. The GYF domain is a proline-binding domain in CD2-binding protein Swiss:O95400.
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Ontology Term
PANTHER:PTHR17920 | TRANSMEMBRANE AND COILED-COIL DOMAIN-CONTAINING PROTEIN 4 TMCO4
 
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Ontology Term
Pfam:PF05277 | Protein of unknown function (DUF726)
Description: This family consists of several uncharacterised eukaryotic proteins.
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Ontology Term
PANTHER:PTHR24067:SF35 | UBIQUITIN-CONJUGATING ENZYME E2 W
 
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Ontology Term
PANTHER:PTHR11748 | D-LACTATE DEHYDROGENASE
 
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Ontology Term
PANTHER:PTHR11748:SF17 | CYTOKININ DEHYDROGENASE 2-RELATED
 
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Ontology Term
Pfam:PF01565 | FAD binding domain
Description: This family consists of various enzymes that use FAD as a co-factor, most of the enzymes are similar to oxygen oxidoreductase. One of the enzymes Vanillyl-alcohol oxidase (VAO) has a solved structure, the alignment includes the FAD binding site, called the PP-loop, between residues 99-110 [1]. The FAD molecule is covalently bound in the known structure, however the residue that links to the FAD is not in the alignment. VAO catalyses the oxidation of a wide variety of substrates, ranging form aromatic amines to 4-alkylphenols. Other members of this family include D-lactate dehydrogenase, this enzyme catalyses the conversion of D-lactate to pyruvate using FAD as a co-factor; mitomycin radical oxidase, this enzyme oxidises the reduced form of mitomycins and is involved in mitomycin resistance. This family includes MurB an UDP-N-acetylenolpyruvoylglucosamine reductase enzyme EC:1.1.1.158. This enzyme is involved in the biosynthesis of peptidoglycan [2].
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Ontology Term
Pfam:PF02913 | FAD linked oxidases, C-terminal domain
Description: This domain has a ferredoxin-like fold.
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Ontology Term
PANTHER:PTHR11918 | RADICAL SAM PROTEINS
 
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Ontology Term
Pfam:PF00919 | Uncharacterized protein family UPF0004
Description: This family is the N terminal half of the Prosite family. The C-terminal half has been shown to be related to MiaB proteins [1,2]. This domain is a nearly always found in conjunction with Pfam:PF04055 and Pfam:PF01938 although its function is uncertain.
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Ontology Term
Pfam:PF01938 | TRAM domain
Description: This small domain has no known function. However it may perform a nucleic acid binding role (Bateman A. unpublished observation).
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Ontology Term
Pfam:PF04055 | Radical SAM superfamily
Description: Radical SAM proteins catalyse diverse reactions, including unusual methylations, isomerisation, sulphur insertion, ring formation, anaerobic oxidation and protein radical formation.
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Ontology Term
PANTHER:PTHR11727 | DIMETHYLADENOSINE TRANSFERASE
 
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Ontology Term
Pfam:PF00398 | Ribosomal RNA adenine dimethylase
Description: NULL
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Ontology Term
Pfam:PF02140 | Galactose binding lectin domain
Description: NULL
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Ontology Term
PANTHER:PTHR10438 | THIOREDOXIN
 
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Ontology Term
Pfam:PF00085 | Thioredoxin
Description: Thioredoxins are small enzymes that participate in redox reactions, via the reversible oxidation of an active centre disulfide bond. Some members with only the active site are not separated from the noise.
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Ontology Term
PANTHER:PTHR20921 | UNCHARACTERIZED
 
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Ontology Term
PANTHER:PTHR20921:SF0 | TRANSMEMBRANE PROTEIN 222
 
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Ontology Term
Pfam:PF05608 | Protein of unknown function (DUF778)
Description: This family consists of several eukaryotic proteins of unknown function.
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Ontology Term
PANTHER:PTHR11374 | UDP-GLUCOSE DEHYDROGENASE/UDP-MANNAC DEHYDROGENASE
 
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Ontology Term
PANTHER:PTHR11374:SF3 | UDP-GLUCOSE 6-DEHYDROGENASE
 
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Ontology Term
Pfam:PF03720 | UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain
Description: The UDP-glucose/GDP-mannose dehydrogenaseses are a small group of enzymes which possesses the ability to catalyse the NAD-dependent 2-fold oxidation of an alcohol to an acid without the release of an aldehyde intermediate [2].
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Ontology Term
Pfam:PF00984 | UDP-glucose/GDP-mannose dehydrogenase family, central domain
Description: The UDP-glucose/GDP-mannose dehydrogenaseses are a small group of enzymes which possesses the ability to catalyse the NAD-dependent 2-fold oxidation of an alcohol to an acid without the release of an aldehyde intermediate [2].
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Ontology Term
Pfam:PF03721 | UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain
Description: The UDP-glucose/GDP-mannose dehydrogenaseses are a small group of enzymes which possesses the ability to catalyse the NAD-dependent 2-fold oxidation of an alcohol to an acid without the release of an aldehyde intermediate [2].
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Ontology Term
PANTHER:PTHR24073 | DRAB5-RELATED
 
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Ontology Term
PANTHER:PTHR12468 | GPI MANNOSYLTRANSFERASE 2
 
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Ontology Term
Pfam:PF04188 | Mannosyltransferase (PIG-V)
Description: This is a family of eukaryotic ER membrane proteins that are involved in the synthesis of glycosylphosphatidylinositol (GPI), a glycolipid that anchors many proteins to the eukaryotic cell surface. Proteins in this family are involved in transferring the second mannose in the biosynthetic pathway of GPI [1] [2].
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Ontology Term
PANTHER:PTHR31604 | PROTEIN LATERAL ROOT PRIMORDIUM 1
 
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Ontology Term
Pfam:PF05142 | Domain of unknown function (DUF702)
Description: Members of this family are found in various putative zinc finger proteins.
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Ontology Term
PANTHER:PTHR10168 | GLUTAREDOXIN
 
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Ontology Term
Pfam:PF00462 | Glutaredoxin
Description: NULL
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Ontology Term
PANTHER:PTHR23070 | BCS1 AAA-TYPE ATPASE
 
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Ontology Term
PANTHER:PTHR11247 | PALMITOYL-PROTEIN THIOESTERASE/DOLICHYLDIPHOSPHATASE 1
 
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Ontology Term
PANTHER:PTHR31451 | FAMILY NOT NAMED
 
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Ontology Term
Pfam:PF00150 | Cellulase (glycosyl hydrolase family 5)
Description: NULL
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Ontology Term
PANTHER:PTHR23172 | AUXILIN/CYCLIN G-ASSOCIATED KINASE-RELATED
 
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Ontology Term
PANTHER:PTHR23273 | REPLICATION FACTOR A 1, RFA1
 
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Ontology Term
PANTHER:PTHR23273:SF0 | REPLICATION PROTEIN A 70 KDA DNA-BINDING SUBUNIT
 
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Ontology Term
PANTHER:PTHR13061 | DYNACTIN SUBUNIT P25
 
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