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Enzyme Commission (EC): Transferring alkyl or aryl groups, other than methyl groups 
(show info)
Biomedical Ontology
Like Gene Ontology (GO), biomedical ontology such as phenotype ontology classifies and organizes gene-mutant/null phenotypic information from the very general at the top to more specific terms in the directed acyclic graph (DAG) by viewing an individual term as a node and its relations to parental terms (allowing for multiple parents) as directed edges. To navigate this hierarchy, we display all parental phenotypic terms to the current phenotypic term of interest ordered by their shortest distances to the current term. Also, only direct children phenotypic terms of the current phenotypic term are listed. Biomedical ontologies we have incorporated are as follows:
- Disease Ontology (DO) Ontology DO semantically integrates disease and medical vocabularies through extensive cross mapping of DO terms to MeSH, ICD, NCI’s thesaurus, SNOMED and OMIM.
- Human Phenotype (HP) Ontology HP captures phenotypic abnormalities that are described in OMIM, along with the corresponding disease-causing genes. It includes three complementary biological concepts: Mode_of_Inheritance (MI), ONset_and_clinical_course (ON), and Phenotypic_Abnormality (PA).
- Mouse Phenotype (MP) Ontology MP describes phenotypes of the mouse after a specific gene is genetically disrupted. Using it, Mouse Genome Informatics (MGI) provides high-coverate gene-level phenotypes for the mouse.
- Worm Phenotype (WP) Ontology WP classifies and organizes phenotype descriptions for C. elegans and other nematodes. Using it, WormBase provides primary resource for phenotype annotations for C. elegans.
- Yeast Phenotype (YP) Ontology Based on YP which is the major contributor to the ‘Ascomycete phenotype ontology’, Saccharomyces Genome Database (SGD) provides single mutant phenotypes for every gene in the yeast genome.
- Fly Phenotype (FP) Ontology FP refers to FlyBase controlled vocabulary. Specifically, a structured controlled vocabulary is used for the annotation of alleles (for their mutagen etc) in FlyBase.
- Fly Anatomy (FA) Ontology FA is a structured controlled vocabulary of the anatomy of Drosophila melanogaster, used for the description of phenotypes and where a gene is expressed.
- Zebrafish Anatomy (ZA) Ontology ZA displays anatomical terms of the zebrafish using standard anatomical nomenclature, together with affected genes.
- Xenopus Anatomy (XA) Ontology XA represents the lineage of tissues and the timing of development for frogs (Xenopus laevis and Xenopus tropicalis). It is used to annotate Xenopus gene expression patterns and mutant and morphant phenotypes.
- Arabidopsis Plant Ontology (AP) Ontology As a major contributor to Plant Ontology which describes plant anatomical and morphological structures (AN) and growth and developmental stages (DE), the Arabidopsis Information Resource (TAIR) provides arabidopsis plant ontology annotations for the model higher plant Arabidopsis thaliana.
- Enzyme Commission (EC) Ontology Each enzyme is allocated a four-digit EC number, the first three digits of which define the reaction catalysed and the fourth of which is a unique identifier (serial number). Each enzyme is also assigned a systematic name that uniquely defines the reaction catalysed.
- UniProtKB KeyWords (KW) Ontology Keywords in UniProtKB are controlled vocabulary, providing a summary of the entry content and are used to index UniProtKB/Swiss-Prot entries based on 10 categories (the category "Technical term" being excluded here). Each keyword is attributed manually to UniProtKB/Swiss-Prot entries and automatically to UniProtKB/TrEMBL entries (according to specific annotation rules).
- CTD Diseases (CD) Ontology CD is MEDIC disease vocabulary that is modified by CTD from the "Diseases" [C] branch of Medical Subject Headings (MeSH), combined with genetic disorders from the Online Mendelian Inheritance in OMIM database.
- CTD Chemicals (CC) Ontology CC is chemical vocabulary that is adapted by CTD from the "Chemicals and Drugs" category and Supplementary Concept Records of Medical Subject Headings (MeSH, a hierarchical vocabulary used to index articles for MEDLINE/PubMed).
Jump to [ Top · Hierarchy · Annotations ]
Root: EC Hierarchy (from IntEnz release 70)
Jump to [ Top · Hierarchy ]
Family( show details)
Highlighted in gray are those with FDR_all>0.001
| SCOP term |
FDR (all) |
Annotation (direct or inherited) |
| Glutathione S-transferase (GST), C-terminal domain | 0 | DIRECT |
| Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain | 0 | DIRECT |
| Homo-oligomeric flavin-containing Cys decarboxylases, HFCD | 0 | DIRECT |
| Phosphomethylpyrimidine kinase C-terminal domain-like | 0 | DIRECT |
| Riboflavin synthase | 0 | DIRECT |
| Rab geranylgeranyltransferase alpha-subunit, insert domain | 0 | DIRECT |
| Isoprenyl diphosphate synthases | 0 | DIRECT |
| SepSecS-like | 0 | DIRECT |
| Cobalamin adenosyltransferase | 0 | DIRECT |
| Dehydroquinate synthase, DHQS | 0 | DIRECT |
| AFP III-like domain | 0 | DIRECT |
| Phosphate binding protein-like | 0 | DIRECT |
| FMN-linked oxidoreductases | 0 | DIRECT |
| Protein prenylyltransferase | 0 | DIRECT |
| Undecaprenyl diphosphate synthase | 0 | DIRECT |
| NadA-like | 0 | DIRECT |
| Squalene synthase | 0 | DIRECT |
| Protein prenyltransferases | 0 | DIRECT |
| Tryptophan synthase beta subunit-like PLP-dependent enzymes | 0 | DIRECT |
| Enolpyruvate transferase, EPT | 0 | DIRECT |
| Deoxyhypusine synthase, DHS | 0 | DIRECT |
| Prenyltransferase-like | 0 | DIRECT |
| Lumazine synthase | 0 | DIRECT |
| Dihydropteroate synthetase | 0 | DIRECT |
| Spermidine synthase | 0 | DIRECT |
| Thiamin phosphate synthase | 0 | DIRECT |
| NeuB-like | 0 | DIRECT |
| LanC-like | 0 | DIRECT |
| Class-II DAHP synthetase | 0 | DIRECT |
| Shikimate dehydrogenase-like | 0 | DIRECT |
| S-adenosylmethionine synthetase | 0 | DIRECT |
| Glutathione S-transferase (GST), N-terminal domain | 0 | DIRECT |
| Class I DAHP synthetase | 0 | DIRECT |
| DsbA-like | 0.0000000005199 | DIRECT |
| MAPEG domain | 0.0000000007065 | DIRECT |
| Shikimate kinase (AroK) | 0.00000001109 | DIRECT |
| Outer arm dynein light chain 1 | 0.0000001085 | DIRECT |
| 6-hydroxymethyl-7,8-dihydropterin pyrophosphokinase, HPPK | 0.000003651 | DIRECT |
| Class I aldolase | 0.002062 | INHERITED FROM: 3-phosphoshikimate 1-carboxyvinyltransferase |
| DHN aldolase/epimerase | 0.005612 | INHERITED FROM: Dihydropteroate synthase |
| Met-10+ protein-like | 0.01358 | INHERITED FROM: tRNA(Phe) (4-demethylwyosine(37)-C(7)) aminocarboxypropyltransferase |
| FAD-linked oxidases, N-terminal domain | 0.1042 | INHERITED FROM: Alkylglycerone-phosphate synthase |
| Cystathionine synthase-like | 0.9987 | INHERITED FROM: O-acetylhomoserine aminocarboxypropyltransferase || Cystathionine gamma-synthase |
| Aminoacid dehydrogenase-like, C-terminal domain | 1 | INHERITED FROM: 3-phosphoshikimate 1-carboxyvinyltransferase |
| RecA protein-like (ATPase-domain) | 1 | INHERITED FROM: Corrinoid adenosyltransferase |
| Thiamin biosynthesis kinases | 1 | INHERITED FROM: Thiamine phosphate synthase |
| Biotin synthase | 1 | INHERITED FROM: 5-amino-6-(D-ribitylamino)uracil--L-tyrosine 4-hydroxyphenyl transferase |
| SCOP term |
FDR (all) |
Annotation (direct or inherited) |
| Glutathione S-transferase (GST), C-terminal domain | 0 | Direct |
| Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain | 0 | Direct |
| Homo-oligomeric flavin-containing Cys decarboxylases, HFCD | 0 | Direct |
| Phosphomethylpyrimidine kinase C-terminal domain-like | 0 | Direct |
| Riboflavin synthase | 0 | Direct |
| Rab geranylgeranyltransferase alpha-subunit, insert domain | 0 | Direct |
| Isoprenyl diphosphate synthases | 0 | Direct |
| SepSecS-like | 0 | Direct |
| Cobalamin adenosyltransferase | 0 | Direct |
| Dehydroquinate synthase, DHQS | 0 | Direct |
| AFP III-like domain | 0 | Direct |
| Phosphate binding protein-like | 0 | Direct |
| FMN-linked oxidoreductases | 0 | Direct |
| Protein prenylyltransferase | 0 | Direct |
| Undecaprenyl diphosphate synthase | 0 | Direct |
| NadA-like | 0 | Direct |
| Squalene synthase | 0 | Direct |
| Protein prenyltransferases | 0 | Direct |
| Tryptophan synthase beta subunit-like PLP-dependent enzymes | 0 | Direct |
| Enolpyruvate transferase, EPT | 0 | Direct |
| Deoxyhypusine synthase, DHS | 0 | Direct |
| Prenyltransferase-like | 0 | Direct |
| Lumazine synthase | 0 | Direct |
| Dihydropteroate synthetase | 0 | Direct |
| Spermidine synthase | 0 | Direct |
| Thiamin phosphate synthase | 0 | Direct |
| NeuB-like | 0 | Direct |
| LanC-like | 0 | Direct |
| Class-II DAHP synthetase | 0 | Direct |
| Shikimate dehydrogenase-like | 0 | Direct |
| S-adenosylmethionine synthetase | 0 | Direct |
| Glutathione S-transferase (GST), N-terminal domain | 0 | Direct |
| Class I DAHP synthetase | 0 | Direct |
| DsbA-like | 0.0000000005199 | Direct |
| MAPEG domain | 0.0000000007065 | Direct |
| Shikimate kinase (AroK) | 0.00000001109 | Direct |
| Outer arm dynein light chain 1 | 0.0000001085 | Direct |
| 6-hydroxymethyl-7,8-dihydropterin pyrophosphokinase, HPPK | 0.000003651 | Direct |
| Class I aldolase | 0.002062 | Inherited |
| DHN aldolase/epimerase | 0.005612 | Inherited |
| Met-10+ protein-like | 0.01358 | Inherited |
| FAD-linked oxidases, N-terminal domain | 0.1042 | Inherited |
| Cystathionine synthase-like | 0.9987 | Inherited |
| Aminoacid dehydrogenase-like, C-terminal domain | 1 | Inherited |
| RecA protein-like (ATPase-domain) | 1 | Inherited |
| Thiamin biosynthesis kinases | 1 | Inherited |
| Biotin synthase | 1 | Inherited |
LINKTO: Domain2BO Download and Domain2BO Algorithm
Jump to [ Top · Hierarchy ]
Supra-domain (Single)( show details)
Highlighted in gray are those with FDR>0.001
LINKTO: Supra-domain2BO Download and Supra-domain2BO Algorithm
Jump to [ Top · Hierarchy ]
Supra-domain (Duplex) in N- to C-terminal order( show details)
Highlighted in gray are those with FDR>0.001
| Supra-domain (Duplex) in N- to C-terminal order |
FDR (all) |
Annotation (direct or inherited) |
63380,63380
63380 - Riboflavin synthase domain-like
63380 - Riboflavin synthase domain-like | 0 | DIRECT |
56796,55205
56796 - Dehydroquinate synthase-like
55205 - EPT/RTPC-like | 0 | DIRECT |
51569,53223
51569 - Aldolase
53223 - Aminoacid dehydrogenase-like, N-terminal domain | 0 | DIRECT |
53850,54782
53850 - Periplasmic binding protein-like II
54782 - Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain | 0 | DIRECT |
52540,52540
52540 - P-loop containing nucleoside triphosphate hydrolases
52540 - P-loop containing nucleoside triphosphate hydrolases | 0 | DIRECT |
55083,51717
55083 - 6-hydroxymethyl-7,8-dihydropterin pyrophosphokinase, HPPK
51717 - Dihydropteroate synthetase-like | 0 | DIRECT |
49594,52075
49594 - Rab geranylgeranyltransferase alpha-subunit, insert domain
52075 - Outer arm dynein light chain 1 | 0 | DIRECT |
103473,53335
103473 - MFS general substrate transporter
53335 - S-adenosyl-L-methionine-dependent methyltransferases | 0 | DIRECT |
53613,51391
53613 - Ribokinase-like
51391 - Thiamin phosphate synthase | 0 | DIRECT |
55973,55973
55973 - S-adenosylmethionine synthetase
55973 - S-adenosylmethionine synthetase | 0 | DIRECT |
52833,47616
52833 - Thioredoxin-like
47616 - GST C-terminal domain-like | 0 | DIRECT |
51391,53613
51391 - Thiamin phosphate synthase
53613 - Ribokinase-like | 0 | DIRECT |
55205,52540
55205 - EPT/RTPC-like
52540 - P-loop containing nucleoside triphosphate hydrolases | 0 | DIRECT |
48439,49594
48439 - Protein prenylyltransferase
49594 - Rab geranylgeranyltransferase alpha-subunit, insert domain | 0 | DIRECT |
51569,51269
51569 - Aldolase
51269 - AFP III-like domain | 0 | DIRECT |
-9,51569
-9 - PDB
51569 - Aldolase | 0 | DIRECT |
52540,51569
52540 - P-loop containing nucleoside triphosphate hydrolases
51569 - Aldolase | 0 | DIRECT |
56176,55103
56176 - FAD-binding/transporter-associated domain-like
55103 - FAD-linked oxidases, C-terminal domain | 0.00001374 | DIRECT |
55620,55083
55620 - Tetrahydrobiopterin biosynthesis enzymes-like
55083 - 6-hydroxymethyl-7,8-dihydropterin pyrophosphokinase, HPPK | 0.00002034 | DIRECT |
53223,51735
53223 - Aminoacid dehydrogenase-like, N-terminal domain
51735 - NAD(P)-binding Rossmann-fold domains | 0.0002246 | DIRECT |
55620,55620
55620 - Tetrahydrobiopterin biosynthesis enzymes-like
55620 - Tetrahydrobiopterin biosynthesis enzymes-like | 0.01746 | INHERITED FROM: Dihydropteroate synthase |
| Supra-domain (Duplex) in N- to C-terminal order |
FDR (all) |
Annotation (direct or inherited) |
63380,63380
63380 - Riboflavin synthase domain-like
63380 - Riboflavin synthase domain-like | 0 | Direct |
56796,55205
56796 - Dehydroquinate synthase-like
55205 - EPT/RTPC-like | 0 | Direct |
51569,53223
51569 - Aldolase
53223 - Aminoacid dehydrogenase-like, N-terminal domain | 0 | Direct |
53850,54782
53850 - Periplasmic binding protein-like II
54782 - Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain | 0 | Direct |
52540,52540
52540 - P-loop containing nucleoside triphosphate hydrolases
52540 - P-loop containing nucleoside triphosphate hydrolases | 0 | Direct |
55083,51717
55083 - 6-hydroxymethyl-7,8-dihydropterin pyrophosphokinase, HPPK
51717 - Dihydropteroate synthetase-like | 0 | Direct |
49594,52075
49594 - Rab geranylgeranyltransferase alpha-subunit, insert domain
52075 - Outer arm dynein light chain 1 | 0 | Direct |
103473,53335
103473 - MFS general substrate transporter
53335 - S-adenosyl-L-methionine-dependent methyltransferases | 0 | Direct |
53613,51391
53613 - Ribokinase-like
51391 - Thiamin phosphate synthase | 0 | Direct |
55973,55973
55973 - S-adenosylmethionine synthetase
55973 - S-adenosylmethionine synthetase | 0 | Direct |
52833,47616
52833 - Thioredoxin-like
47616 - GST C-terminal domain-like | 0 | Direct |
51391,53613
51391 - Thiamin phosphate synthase
53613 - Ribokinase-like | 0 | Direct |
55205,52540
55205 - EPT/RTPC-like
52540 - P-loop containing nucleoside triphosphate hydrolases | 0 | Direct |
48439,49594
48439 - Protein prenylyltransferase
49594 - Rab geranylgeranyltransferase alpha-subunit, insert domain | 0 | Direct |
51569,51269
51569 - Aldolase
51269 - AFP III-like domain | 0 | Direct |
-9,51569
-9 - PDB
51569 - Aldolase | 0 | Direct |
52540,51569
52540 - P-loop containing nucleoside triphosphate hydrolases
51569 - Aldolase | 0 | Direct |
56176,55103
56176 - FAD-binding/transporter-associated domain-like
55103 - FAD-linked oxidases, C-terminal domain | 0.00001374 | Direct |
55620,55083
55620 - Tetrahydrobiopterin biosynthesis enzymes-like
55083 - 6-hydroxymethyl-7,8-dihydropterin pyrophosphokinase, HPPK | 0.00002034 | Direct |
53223,51735
53223 - Aminoacid dehydrogenase-like, N-terminal domain
51735 - NAD(P)-binding Rossmann-fold domains | 0.0002246 | Direct |
55620,55620
55620 - Tetrahydrobiopterin biosynthesis enzymes-like
55620 - Tetrahydrobiopterin biosynthesis enzymes-like | 0.01746 | Inherited |
LINKTO: Supra-domain2BO Download and Supra-domain2BO Algorithm
Jump to [ Top · Hierarchy ]
Supra-domain (Triple) in N- to C-terminal order( show details)
Highlighted in gray are those with FDR>0.001
| Supra-domain (Triple) in N- to C-terminal order |
FDR (all) |
Annotation (direct or inherited) |
51569,53223,51735
51569 - Aldolase
53223 - Aminoacid dehydrogenase-like, N-terminal domain
51735 - NAD(P)-binding Rossmann-fold domains | 0 | DIRECT |
55973,55973,55973
55973 - S-adenosylmethionine synthetase
55973 - S-adenosylmethionine synthetase
55973 - S-adenosylmethionine synthetase | 0 | DIRECT |
56796,55205,52540
56796 - Dehydroquinate synthase-like
55205 - EPT/RTPC-like
52540 - P-loop containing nucleoside triphosphate hydrolases | 0 | DIRECT |
55205,52540,51569
55205 - EPT/RTPC-like
52540 - P-loop containing nucleoside triphosphate hydrolases
51569 - Aldolase | 0 | DIRECT |
55620,55620,55083
55620 - Tetrahydrobiopterin biosynthesis enzymes-like
55620 - Tetrahydrobiopterin biosynthesis enzymes-like
55083 - 6-hydroxymethyl-7,8-dihydropterin pyrophosphokinase, HPPK | 0 | DIRECT |
48439,49594,52075
48439 - Protein prenylyltransferase
49594 - Rab geranylgeranyltransferase alpha-subunit, insert domain
52075 - Outer arm dynein light chain 1 | 0 | DIRECT |
55620,55083,51717
55620 - Tetrahydrobiopterin biosynthesis enzymes-like
55083 - 6-hydroxymethyl-7,8-dihydropterin pyrophosphokinase, HPPK
51717 - Dihydropteroate synthetase-like | 0 | DIRECT |
52540,51569,53223
52540 - P-loop containing nucleoside triphosphate hydrolases
51569 - Aldolase
53223 - Aminoacid dehydrogenase-like, N-terminal domain | 0 | DIRECT |
| Supra-domain (Triple) in N- to C-terminal order |
FDR (all) |
Annotation (direct or inherited) |
51569,53223,51735
51569 - Aldolase
53223 - Aminoacid dehydrogenase-like, N-terminal domain
51735 - NAD(P)-binding Rossmann-fold domains | 0 | Direct |
55973,55973,55973
55973 - S-adenosylmethionine synthetase
55973 - S-adenosylmethionine synthetase
55973 - S-adenosylmethionine synthetase | 0 | Direct |
56796,55205,52540
56796 - Dehydroquinate synthase-like
55205 - EPT/RTPC-like
52540 - P-loop containing nucleoside triphosphate hydrolases | 0 | Direct |
55205,52540,51569
55205 - EPT/RTPC-like
52540 - P-loop containing nucleoside triphosphate hydrolases
51569 - Aldolase | 0 | Direct |
55620,55620,55083
55620 - Tetrahydrobiopterin biosynthesis enzymes-like
55620 - Tetrahydrobiopterin biosynthesis enzymes-like
55083 - 6-hydroxymethyl-7,8-dihydropterin pyrophosphokinase, HPPK | 0 | Direct |
48439,49594,52075
48439 - Protein prenylyltransferase
49594 - Rab geranylgeranyltransferase alpha-subunit, insert domain
52075 - Outer arm dynein light chain 1 | 0 | Direct |
55620,55083,51717
55620 - Tetrahydrobiopterin biosynthesis enzymes-like
55083 - 6-hydroxymethyl-7,8-dihydropterin pyrophosphokinase, HPPK
51717 - Dihydropteroate synthetase-like | 0 | Direct |
52540,51569,53223
52540 - P-loop containing nucleoside triphosphate hydrolases
51569 - Aldolase
53223 - Aminoacid dehydrogenase-like, N-terminal domain | 0 | Direct |
LINKTO: Supra-domain2BO Download and Supra-domain2BO Algorithm
Plot distribution on species Tree Of Life (sTOL) for Superfamily and/or Family domains annotated by this EC term
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Plot tree as:
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Download Newick format tree:
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( show help)
Trees by TreeVector
A presence/absence matrix is generated using protein domain
architecture data for all genomes in SUPERFAMILY. The PAUP
software is used to produce a single, large tree topology using
heuristic parsimony methods. Genome combinations, or specific clades, can be displayed as
if individual trees had been produced. However, this data is extracted from the single
large tree. This produces a higher quality topology than if the trees had been produced
on their own, and allows the trees to be displayed instantly.
Plot distribution on species Tree Of Life (sTOL) for single supra-domains annotated by this EC term
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Plot tree as:
| |
Download Newick format tree:
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Browsing in TREE OF LIFE:
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( show help)
Trees by TreeVector
A presence/absence matrix is generated using protein domains and supradomains
for all genomes in SUPERFAMILY. The RAxML
software is used to produce a single, large tree topology using
heuristic parsimony methods. Genome combinations, or specific clades, can be displayed as
if individual trees had been produced. However, this data is extracted from the single
large tree. This produces a higher quality topology than if the trees had been produced
on their own, and allows the trees to be displayed instantly.
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> BO Hierarchy > Transferring alkyl or aryl groups, other than methyl groups
