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Enzyme Commission (EC): Acting on paired donors, with incorporation or reduction of molecular oxygen. The oxygen incorporate
(show info)
Phenotype Ontology
Like Gene Ontology (GO), phenotypy 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. Phenotype ontologies we have incorporated are as follows:
- Disease Ontology (DO) Ontology (DO) DO semantically integrates disease and medical vocabularies through extensive cross mapping of DO terms to MeSH, ICD, NCI thesaurus, SNOMED and OMIM.
- Human Phenotype (HP) Ontology (HP) 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) 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) 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 (YP) 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) 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) 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) ZA displays anatomical terms of the zebrafish using standard anatomical nomenclature, together with affected genes.
- Xenopus Anatomy (XA) Ontology (XA) 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 (AP) 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 (EC) 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.
- DrugBank ATC (DB) Ontology (DB) In the Anatomical Therapeutic Chemical (ATC) classification system, drugs are classified in groups at five different levels according to the organ or system (1st level, anatomical main group) on which they act and their therapeutic (2nd level, therapeutic subgroup), pharmacological (3rd level, pharmacological subgroup) and chemical properties (4th level, chemical subgroup; 5th level, chemical substance). Only drugs in DrugBank are considered.
- UniProtKB KeyWords (KW) Ontology (KW) 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).
- UniProtKB UniPathway (UP) Ontology (UP) UP is a fully manually curated resource for the representation and annotation of metabolic pathways, being used as controlled vocabulary for pathway annotation in UniProtKB.
Structural Domain Phenotype Ontology and its Annotations
Structural Classification of Proteins (SCOP) classifies evolutionary-related domains into Superfamily level and Family level. Using the phenotype ontologies above, we have generated the domain-centric phenotype annotations, and further identified those phenotype terms which are the most informative to annotate SCOP domains. Promisingly, domain-centric phenotypic annotations can serve as an alternative starting point to explore genotype-phenotype relationships. We provide several relevant files for the download, including the annotation and the corresponding ontology for each phenotype ontology.
- Structural Domain Disease Ontology (DO) Ontology (SDDO) and its Annotations: For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2DO.txt, and the corresponding ontology:SDDO.txt) and mysql tables (Domain2PO.sql.gz).
- Structural Domain Human Phenotype (HP) Ontology (SDHP) and its Annotations: For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2HP.txt, and the corresponding ontology:SDHP.txt) and mysql tables (Domain2PO.sql.gz).
- Structural Domain Mouse Phenotype (MP) Ontology (SDMP) and its Annotations: For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2MP.txt, and the corresponding ontology:SDMP.txt) and mysql tables (Domain2PO.sql.gz).
- Structural Domain Worm Phenotype (WP) Ontology (SDWP) and its Annotations: For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2WP.txt, and the corresponding ontology:SDWP.txt) and mysql tables (Domain2PO.sql.gz).
- Structural Domain Yeast Phenotype (YP) Ontology (SDYP) and its Annotations: For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2YP.txt, and the corresponding ontology:SDYP.txt) and mysql tables (Domain2PO.sql.gz).
- Structural Domain Fly Phenotype (FP) Ontology (SDFP) and its Annotations: For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2FP.txt, and the corresponding ontology:SDFP.txt) and mysql tables (Domain2PO.sql.gz).
- Structural Domain Fly Anatomy (FA) Ontology (SDFA) and its Annotations: For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2FA.txt, and the corresponding ontology:SDFA.txt) and mysql tables (Domain2PO.sql.gz).
- Structural Domain Zebrafish Anatomy (ZA) Ontology (SDZA) and its Annotations: For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2ZA.txt, and the corresponding ontology:SDZA.txt) and mysql tables (Domain2PO.sql.gz).
- Structural Domain Xenopus Anatomy (XA) Ontology (SDXA) and its Annotations: For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2XA.txt, and the corresponding ontology:SDXA.txt) and mysql tables (Domain2PO.sql.gz).
- Structural Domain Arabidopsis Plant Ontology (AP) Ontology (SDAP) and its Annotations: For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2AP.txt, and the corresponding ontology:SDAP.txt) and mysql tables (Domain2PO.sql.gz).
- Structural Domain Enzyme Commission (EC) Ontology (SDEC) and its Annotations: For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2EC.txt, and the corresponding ontology:SDEC.txt) and mysql tables (Domain2PO.sql.gz).
- Structural Domain DrugBank ATC (DB) Ontology (SDDB) and its Annotations: For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2DB.txt, and the corresponding ontology:SDDB.txt) and mysql tables (Domain2PO.sql.gz).
- Structural Domain UniProtKB KeyWords (KW) Ontology (SDKW) and its Annotations: For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2KW.txt, and the corresponding ontology:SDKW.txt) and mysql tables (Domain2PO.sql.gz).
- Structural Domain UniProtKB UniPathway (UP) Ontology (SDUP) and its Annotations: For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2UP.txt, and the corresponding ontology:SDUP.txt) and mysql tables (Domain2PO.sql.gz).
Supra-domain Phenotype Ontology and its Annotations
Although domain-centric annotations hold great promise in describing phenotypic nature of independent domains, most domains themselves may not just work alone. In multi-domain proteins, they may be combined together to form distinct domain architectures. The recombination of the existing domains is considered as one of major driving forces for phenotypic diversificaation. As an extension, we have also generated supra-domain phenotype ontology and its annotations. Compared to domain-centric phenotype ontology and annotations (SCOP domains at the Superfamily level and Family level), this version focuses on supra-domains and individual SCOP domains ONLY at the Superfamily level. Besides, in terms of individual superfamilies, their annotations from the domain-centric version may be different from those from supra-domains version. Depending on your focus, the former should be used for the consideration of both the Superfamily level and Family level, otherwise the latter should be used if you are interested in domain combinations. Also, we provide several relevant files for the download, including the annotation and the corresponding ontology for each phenotype ontology.
- Supra-domain Domain Disease Ontology (DO) Ontology (SPDO) and its Annotations: For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2DO.txt, and the corresponding ontology:SPDO.txt) and mysql tables (SP2PO.sql.gz).
- Supra-domain Domain Human Phenotype (HP) Ontology (SPHO) and its Annotations: For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2HP.txt, and the corresponding ontology:SPHO.txt) and mysql tables (SP2PO.sql.gz).
- Supra-domain Domain Mouse Phenotype (MP) Ontology (SPMP) and its Annotations: For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2MP.txt, and the corresponding ontology:SPMP.txt) and mysql tables (SP2PO.sql.gz).
- Supra-domain Domain Worm Phenotype (WP) Ontology (SPWP) and its Annotations: For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2WP.txt, and the corresponding ontology:SPWP.txt) and mysql tables (SP2PO.sql.gz).
- Supra-domain Domain Yeast Phenotype (YP) Ontology (SPYP) and its Annotations: For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2YP.txt, and the corresponding ontology:SPYP.txt) and mysql tables (SP2PO.sql.gz).
- Supra-domain Domain Fly Phenotype (FP) Ontology (SPFP) and its Annotations: For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2FP.txt, and the corresponding ontology:SPFP.txt) and mysql tables (SP2PO.sql.gz).
- Supra-domain Domain Fly Anatomy (FA) Ontology (SPFA) and its Annotations: For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2FA.txt, and the corresponding ontology:SPFA.txt) and mysql tables (SP2PO.sql.gz).
- Supra-domain Domain Zebrafish Anatomy (ZA) Ontology (SPZA) and its Annotations: For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2ZA.txt, and the corresponding ontology:SPZA.txt) and mysql tables (SP2PO.sql.gz).
- Supra-domain Domain Xenopus Anatomy (XA) Ontology (SPXA) and its Annotations: For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2XA.txt, and the corresponding ontology:SPXA.txt) and mysql tables (SP2PO.sql.gz).
- Supra-domain Domain Arabidopsis Plant Ontology (AP) Ontology (SPAP) and its Annotations: For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2AP.txt, and the corresponding ontology:SPAP.txt) and mysql tables (SP2PO.sql.gz).
- Supra-domain Domain Enzyme Commission (EC) Ontology (SPEC) and its Annotations: For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2EC.txt, and the corresponding ontology:SPEC.txt) and mysql tables (SP2PO.sql.gz).
- Supra-domain Domain DrugBank ATC (DB) Ontology (SPDB) and its Annotations: For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2DB.txt, and the corresponding ontology:SPDB.txt) and mysql tables (SP2PO.sql.gz).
- Supra-domain Domain UniProtKB KeyWords (KW) Ontology (SPKW) and its Annotations: For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2KW.txt, and the corresponding ontology:SPKW.txt) and mysql tables (SP2PO.sql.gz).
- Supra-domain Domain UniProtKB UniPathway (UP) Ontology (SPUP) and its Annotations: For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2UP.txt, and the corresponding ontology:SPUP.txt) and mysql tables (SP2PO.sql.gz).
Jump to [ Top · Phenotype Hierarchy · Superfamily · Family · Supra-domain ]
Root: EC Hierarchy (from IntEnz release 70)
| Shortest distance to current term (+ for parents, - for children) |
EC term [EC ID] <#Children> |
(#SF|#FA) |
#Supra-domain (Single|Duplex|Triple) |
| + + 2: | root [root] <7> |
| + 1: | Oxidoreductases [1] <26> | (213|314) |
(212|187|94) |
| 0: | Acting on paired donors, with incorporation or reduction of molecular oxygen. The oxygen incorporate [1.14] <15> | (44|52) |
(44|23|8) |
| - 1: | With NADH or NADPH as one donor, and incorporation of one atom of oxygen [1.14.13] <255> | (14|16) |
(14|11|5) |
| - 1: | With reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen [1.14.14] <172> | (11|12) |
(11|4|1) |
| - 1: | With oxidation of a pair of donors resulting in the reduction of molecular oxygen to two molecules o [1.14.19] <81> | (2|2) |
(2|0|0) |
| - 1: | With 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors [1.14.11] <73> | (7|11) |
(7|3|0) |
| - 1: | Miscellaneous [1.14.99] <71> | (8|7) |
(8|1|0) |
| - 1: | With reduced iron-sulfur protein as one donor, and incorporation of one atom of oxygen [1.14.15] <37> | (8|6) |
(8|3|1) |
| - 1: | With NADH or NADPH as one donor, and incorporation of two atoms of oxygen into one donor [1.14.12] <27> | (6|6) |
(6|3|1) |
| - 1: | With 2-oxoglutarate as one donor, and the other dehydrogenated [1.14.20] <15> | (1|1) |
(1|0|0) |
| - 1: | With NADH or NADPH as one donor, and the other dehydrogenated [1.14.21] <12> | (0|0) |
(0|0|0) |
| - 1: | With NADH or NADPH as one donor [1.14.1] <11> | (0|0) |
(0|0|0) |
| - 1: | With another compound as one donor, and incorporation of one atom of oxygen [1.14.18] <11> | (6|4) |
(6|3|1) |
| - 1: | With reduced pteridine as one donor, and incorporation of one atom of oxygen [1.14.16] <7> | (2|2) |
(2|1|0) |
| - 1: | With reduced ascorbate as one donor, and incorporation of one atom of oxygen [1.14.17] <4> | (4|3) |
(4|1|0) |
| - 1: | With ascorbate as one donor [1.14.2] <2> | (0|0) |
(0|0|0) |
| - 1: | With reduced pteridine as one donor [1.14.3] <1> | (0|0) |
(0|0|0) |
Jump to [ Top · Phenotype Hierarchy · Superfamily · Family · Supra-domain ]
Superfamily(show details)
Superfamily domains annotated to this EC term (SDEC level: Informative)
Highlighted in gray are those with FDR_all>0.001
| SCOP term | FDR (all) | Annotation (direct or inherited) |
| Bacterial luciferase-like | 0 | DIRECT |
| Ferritin-like | 0 | DIRECT |
| ARM repeat | 0 | DIRECT |
| Cytochrome P450 | 0 | DIRECT |
| Aromatic aminoacid monoxygenases, catalytic and oligomerization domains | 0 | DIRECT |
| FYVE/PHD zinc finger | 0 | DIRECT |
| Bet v1-like | 0 | DIRECT |
| PHM/PNGase F | 0 | DIRECT |
| Clavaminate synthase-like | 0 | DIRECT |
| Riboflavin synthase domain-like | 0 | DIRECT |
| Globin-like | 0 | DIRECT |
| FAD/NAD(P)-binding domain | 0 | DIRECT |
| Cytochrome b5-like heme/steroid binding domain | 0 | DIRECT |
| Ferredoxin reductase-like, C-terminal NADP-linked domain | 0 | DIRECT |
| ISP domain | 0 | DIRECT |
| Di-copper centre-containing domain | 0 | DIRECT |
| TPR-like | 0 | DIRECT |
| NTF2-like | 0 | DIRECT |
| Calponin-homology domain, CH-domain | 0 | DIRECT |
| Nitric oxide (NO) synthase oxygenase domain | 0 | DIRECT |
| Hemocyanin, N-terminal domain | 0 | DIRECT |
| DinB/YfiT-like putative metalloenzymes | 0 | DIRECT |
| EGF/Laminin | 5.111e-16 | DIRECT |
| Heme oxygenase-like | 0.0000000000001594 | DIRECT |
| Dimeric alpha+beta barrel | 0.0000000000003717 | DIRECT |
| ACT-like | 0.0000000008459 | DIRECT |
| SMAD/FHA domain | 0.00000005667 | DIRECT |
| RNI-like | 0.000001618 | DIRECT |
| HIT/MYND zinc finger-like | 0.00000739 | DIRECT |
| NHL repeat | 0.00001394 | DIRECT |
| C-type lectin-like | 0.00002241 | DIRECT |
| Glucocorticoid receptor-like (DNA-binding domain) | 0.0004584 | DIRECT |
| Calcium-dependent phosphotriesterase | 0.001838 | INHERITED FROM: With reduced ascorbate as one donor, and incorporation of one atom of oxygen || Peptidylglycine monooxygenase |
| PDZ domain-like | 0.001853 | INHERITED FROM: With NADH or NADPH as one donor, and incorporation of one atom of oxygen || Nitric-oxide synthase (NADPH) |
| Metallo-hydrolase/oxidoreductase | 0.01189 | INHERITED FROM: With another compound as one donor, and incorporation of one atom of oxygen || CMP-N-acetylneuraminate monooxygenase |
| E set domains | 0.05928 | INHERITED FROM: Tyrosinase || With another compound as one donor, and incorporation of one atom of oxygen |
| Acyl-CoA dehydrogenase NM domain-like | 0.1687 | INHERITED FROM: 4-hydroxyphenylacetate 3-monooxygenase || With reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen |
| Acyl-CoA dehydrogenase C-terminal domain-like | 0.2558 | INHERITED FROM: 4-hydroxyphenylacetate 3-monooxygenase || With reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen |
| 2Fe-2S ferredoxin-like | 0.4088 | INHERITED FROM: With NADH or NADPH as one donor, and incorporation of one atom of oxygen || 3-ketosteroid 9-alpha-monooxygenase || Carnitine monooxygenase |
| Flavoproteins | 1 | INHERITED FROM: With NADH or NADPH as one donor, and incorporation of one atom of oxygen || Unspecific monooxygenase || Nitric-oxide synthase (NADPH) |
| Heme-dependent peroxidases | 1 | INHERITED FROM: Miscellaneous || Prostaglandin-endoperoxide synthase |
| Nucleotide-diphospho-sugar transferases | 1 | INHERITED FROM: With 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors || Procollagen-lysine 5-dioxygenase |
| FAD-linked reductases, C-terminal domain | 1 | INHERITED FROM: With NADH or NADPH as one donor, and incorporation of one atom of oxygen || 4-hydroxybenzoate 3-monooxygenase || 6-hydroxynicotinate 3-monooxygenase || 3-hydroxybenzoate 6-monooxygenase |
| P-loop containing nucleoside triphosphate hydrolases | 1 | INHERITED FROM: Thymine dioxygenase |
Jump to [ Top · Phenotype Hierarchy · Superfamily · Family · Supra-domain ]
Family(show details)
Family domains annotated to this EC term (SDEC level: Informative)
Highlighted in gray are those with FDR_all>0.001
| SCOP term | FDR (all) | Annotation (direct or inherited) |
| PG130-like | 0 | DIRECT |
| Ssud-like monoxygenases | 0 | DIRECT |
| PHBH-like | 0 | DIRECT |
| Bacterial luciferase (alkanal monooxygenase) | 0 | DIRECT |
| Aromatic aminoacid monoxygenases, catalytic and oligomerization domains | 0 | DIRECT |
| PBS lyase HEAT-like repeat | 0 | DIRECT |
| Ring hydroxylating alpha subunit catalytic domain | 0 | DIRECT |
| Ring hydroxylating beta subunit | 0 | DIRECT |
| Ferredoxin reductase FAD-binding domain-like | 0 | DIRECT |
| Globins | 0 | DIRECT |
| PhyH-like | 0 | DIRECT |
| Clavaminate synthase | 0 | DIRECT |
| Penicillin synthase-like | 0 | DIRECT |
| AlkB-like | 0 | DIRECT |
| Hypoxia-inducible factor HIF ihhibitor (FIH1) | 0 | DIRECT |
| Eukaryotic type heme oxygenase | 0 | DIRECT |
| Phenylalanine metabolism regulatory domain | 0 | DIRECT |
| FAD-linked reductases, N-terminal domain | 0 | DIRECT |
| Hemocyanin middle domain | 0 | DIRECT |
| Ribonucleotide reductase-like | 0 | DIRECT |
| Hemocyanin, N-terminal domain | 0 | DIRECT |
| EGF-type module | 0 | DIRECT |
| Type II Proline 3-hydroxylase (proline oxidase) | 0 | DIRECT |
| Flavohemoglobin, C-terminal domain | 0 | DIRECT |
| Peptidylglycine alpha-hydroxylating monooxygenase, PHM | 0 | DIRECT |
| Ring hydroxylating alpha subunit ISP domain | 0 | DIRECT |
| Nitric oxide (NO) synthase oxygenase domain | 0 | DIRECT |
| TauD/TfdA-like | 0 | DIRECT |
| Cytochrome b5 | 0 | DIRECT |
| Asparaginyl hydroxylase-like | 0 | DIRECT |
| Calponin-homology domain, CH-domain | 0 | DIRECT |
| Arthropod hemocyanin, C-terminal domain | 0 | DIRECT |
| Cytochrome P450 | 0 | DIRECT |
| Tetratricopeptide repeat (TPR) | 0.0000000000006438 | DIRECT |
| NADPH-cytochrome p450 reductase FAD-binding domain-like | 0.0000000000007231 | DIRECT |
| NADPH-cytochrome p450 reductase-like | 0.00000000001229 | DIRECT |
| Cytochrome p450 reductase N-terminal domain-like | 0.0000000005699 | DIRECT |
| PHD domain | 0.00000001941 | DIRECT |
| Myeloperoxidase-like | 0.00000005325 | DIRECT |
| PDZ domain | 0.00000006651 | DIRECT |
| FHA domain | 0.0000001024 | DIRECT |
| LIM domain | 0.0000002287 | DIRECT |
| Flavodoxin-related | 0.00000317 | DIRECT |
| NHL repeat | 0.000003624 | DIRECT |
| Sulfatase-modifying factor-like | 0.000005011 | DIRECT |
| Aromatic dioxygenase reductase-like | 0.000005011 | DIRECT |
| FAD/NAD-linked reductases, N-terminal and central domains | 0.005724 | INHERITED FROM: Aliphatic glucosinolate S-oxygenase || With NADH or NADPH as one donor, and incorporation of one atom of oxygen || Flavin-containing monooxygenase || Trimethylamine monooxygenase || Albendazole monooxygenase (sufoxide-forming) |
| Medium chain acyl-CoA dehydrogenase, NM (N-terminal and middle) domains | 0.02139 | INHERITED FROM: 4-hydroxyphenylacetate 3-monooxygenase |
| Medium chain acyl-CoA dehydrogenase-like, C-terminal domain | 0.3324 | INHERITED FROM: 4-hydroxyphenylacetate 3-monooxygenase |
| E-set domains of sugar-utilizing enzymes | 0.3634 | INHERITED FROM: Miscellaneous |
| 2Fe-2S ferredoxin domains from multidomain proteins | 0.7772 | INHERITED FROM: With NADH or NADPH as one donor, and incorporation of one atom of oxygen || Carnitine monooxygenase |
| Tandem AAA-ATPase domain | 1 | INHERITED FROM: Thymine dioxygenase |
| SCOP term | FDR (all) | Annotation (direct or inherited) |
| PG130-like | 0 | Direct |
| Ssud-like monoxygenases | 0 | Direct |
| PHBH-like | 0 | Direct |
| Bacterial luciferase (alkanal monooxygenase) | 0 | Direct |
| Aromatic aminoacid monoxygenases, catalytic and oligomerization domains | 0 | Direct |
| PBS lyase HEAT-like repeat | 0 | Direct |
| Ring hydroxylating alpha subunit catalytic domain | 0 | Direct |
| Ring hydroxylating beta subunit | 0 | Direct |
| Ferredoxin reductase FAD-binding domain-like | 0 | Direct |
| Globins | 0 | Direct |
| PhyH-like | 0 | Direct |
| Clavaminate synthase | 0 | Direct |
| Penicillin synthase-like | 0 | Direct |
| AlkB-like | 0 | Direct |
| Hypoxia-inducible factor HIF ihhibitor (FIH1) | 0 | Direct |
| Eukaryotic type heme oxygenase | 0 | Direct |
| Phenylalanine metabolism regulatory domain | 0 | Direct |
| FAD-linked reductases, N-terminal domain | 0 | Direct |
| Hemocyanin middle domain | 0 | Direct |
| Ribonucleotide reductase-like | 0 | Direct |
| Hemocyanin, N-terminal domain | 0 | Direct |
| EGF-type module | 0 | Direct |
| Type II Proline 3-hydroxylase (proline oxidase) | 0 | Direct |
| Flavohemoglobin, C-terminal domain | 0 | Direct |
| Peptidylglycine alpha-hydroxylating monooxygenase, PHM | 0 | Direct |
| Ring hydroxylating alpha subunit ISP domain | 0 | Direct |
| Nitric oxide (NO) synthase oxygenase domain | 0 | Direct |
| TauD/TfdA-like | 0 | Direct |
| Cytochrome b5 | 0 | Direct |
| Asparaginyl hydroxylase-like | 0 | Direct |
| Calponin-homology domain, CH-domain | 0 | Direct |
| Arthropod hemocyanin, C-terminal domain | 0 | Direct |
| Cytochrome P450 | 0 | Direct |
| Tetratricopeptide repeat (TPR) | 0.0000000000006438 | Direct |
| NADPH-cytochrome p450 reductase FAD-binding domain-like | 0.0000000000007231 | Direct |
| NADPH-cytochrome p450 reductase-like | 0.00000000001229 | Direct |
| Cytochrome p450 reductase N-terminal domain-like | 0.0000000005699 | Direct |
| PHD domain | 0.00000001941 | Direct |
| Myeloperoxidase-like | 0.00000005325 | Direct |
| PDZ domain | 0.00000006651 | Direct |
| FHA domain | 0.0000001024 | Direct |
| LIM domain | 0.0000002287 | Direct |
| Flavodoxin-related | 0.00000317 | Direct |
| NHL repeat | 0.000003624 | Direct |
| Sulfatase-modifying factor-like | 0.000005011 | Direct |
| Aromatic dioxygenase reductase-like | 0.000005011 | Direct |
| FAD/NAD-linked reductases, N-terminal and central domains | 0.005724 | Inherited |
| Medium chain acyl-CoA dehydrogenase, NM (N-terminal and middle) domains | 0.02139 | Inherited |
| Medium chain acyl-CoA dehydrogenase-like, C-terminal domain | 0.3324 | Inherited |
| E-set domains of sugar-utilizing enzymes | 0.3634 | Inherited |
| 2Fe-2S ferredoxin domains from multidomain proteins | 0.7772 | Inherited |
| Tandem AAA-ATPase domain | 1 | Inherited |
Plot distribution on phylogenetic tree for Superfamily and/or Family domains annotated by this phenotype term
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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.
Jump to [ Top · Phenotype Hierarchy · Superfamily · Family · Supra-domain ]
Supra-domain (including individual superfamily)
(show details)
Supra-domains annotated to this EC term (SPEC level: Informative)
Highlighted in gray are those with FDR>0.001
| Supra-domain (Single) |
FDR (all) |
Annotation (direct or inherited) |
| Cytochrome P450 | 0 | DIRECT |
| Hemocyanin, N-terminal domain | 0 | DIRECT |
| Bet v1-like | 0 | DIRECT |
| Nitric oxide (NO) synthase oxygenase domain | 0 | DIRECT |
| TPR-like | 0 | DIRECT |
| FYVE/PHD zinc finger | 0 | DIRECT |
| Cytochrome b5-like heme/steroid binding domain | 0 | DIRECT |
| PHM/PNGase F | 0 | DIRECT |
| Ferredoxin reductase-like, C-terminal NADP-linked domain | 0 | DIRECT |
| Bacterial luciferase-like | 0 | DIRECT |
| Clavaminate synthase-like | 0 | DIRECT |
| NTF2-like | 0 | DIRECT |
| ARM repeat | 0 | DIRECT |
| DinB/YfiT-like putative metalloenzymes | 0 | DIRECT |
| Riboflavin synthase domain-like | 0 | DIRECT |
| ISP domain | 0 | DIRECT |
| Globin-like | 0 | DIRECT |
| Aromatic aminoacid monoxygenases, catalytic and oligomerization domains | 0 | DIRECT |
| Ferritin-like | 0 | DIRECT |
| Calponin-homology domain, CH-domain | 0 | DIRECT |
| Di-copper centre-containing domain | 0 | DIRECT |
| FAD/NAD(P)-binding domain | 0 | DIRECT |
| EGF/Laminin | 3.548e-16 | DIRECT |
| Heme oxygenase-like | 0.0000000000001131 | DIRECT |
| Dimeric alpha+beta barrel | 0.0000000000002653 | DIRECT |
| ACT-like | 0.0000000006289 | DIRECT |
| SMAD/FHA domain | 0.00000004319 | DIRECT |
| RNI-like | 0.000001265 | DIRECT |
| HIT/MYND zinc finger-like | 0.000005824 | DIRECT |
| NHL repeat | 0.00001106 | DIRECT |
| C-type lectin-like | 0.00001785 | DIRECT |
| Glucocorticoid receptor-like (DNA-binding domain) | 0.0003745 | DIRECT |
| Calcium-dependent phosphotriesterase | 0.001527 | INHERITED FROM: With reduced ascorbate as one donor, and incorporation of one atom of oxygen || Peptidylglycine monooxygenase |
| PDZ domain-like | 0.00154 | INHERITED FROM: With NADH or NADPH as one donor, and incorporation of one atom of oxygen || Nitric-oxide synthase (NADPH) |
| Metallo-hydrolase/oxidoreductase | 0.01009 | INHERITED FROM: CMP-N-acetylneuraminate monooxygenase || With another compound as one donor, and incorporation of one atom of oxygen |
| E set domains | 0.05138 | INHERITED FROM: Tyrosinase || With another compound as one donor, and incorporation of one atom of oxygen |
| Acyl-CoA dehydrogenase NM domain-like | 0.1489 | INHERITED FROM: 4-hydroxyphenylacetate 3-monooxygenase || With reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen |
| Acyl-CoA dehydrogenase C-terminal domain-like | 0.2283 | INHERITED FROM: 4-hydroxyphenylacetate 3-monooxygenase || With reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen |
| 2Fe-2S ferredoxin-like | 0.3707 | INHERITED FROM: With NADH or NADPH as one donor, and incorporation of one atom of oxygen || 3-ketosteroid 9-alpha-monooxygenase || Carnitine monooxygenase |
| P-loop containing nucleoside triphosphate hydrolases | 1 | INHERITED FROM: Thymine dioxygenase |
| Heme-dependent peroxidases | 1 | INHERITED FROM: Miscellaneous || Prostaglandin-endoperoxide synthase |
| Nucleotide-diphospho-sugar transferases | 1 | INHERITED FROM: Procollagen-lysine 5-dioxygenase || With 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors |
| Flavoproteins | 1 | INHERITED FROM: Unspecific monooxygenase || With NADH or NADPH as one donor, and incorporation of one atom of oxygen || Nitric-oxide synthase (NADPH) |
| FAD-linked reductases, C-terminal domain | 1 | INHERITED FROM: 6-hydroxynicotinate 3-monooxygenase || With NADH or NADPH as one donor, and incorporation of one atom of oxygen || 3-hydroxybenzoate 6-monooxygenase || 4-hydroxybenzoate 3-monooxygenase |
(show details)
Supra-domains annotated to this EC term (SPEC level: Informative)
Highlighted in gray are those with FDR>0.001
| Supra-domain (Duplex) in N- to C-terminal order |
FDR (all) |
Annotation (direct or inherited) |
50022,56281
50022 - ISP domain
56281 - Metallo-hydrolase/oxidoreductase | 0 | DIRECT |
55021,56534
55021 - ACT-like
56534 - Aromatic aminoacid monoxygenases, catalytic and oligomerization domains | 0 | DIRECT |
51905,51905
51905 - FAD/NAD(P)-binding domain
51905 - FAD/NAD(P)-binding domain | 0 | DIRECT |
47576,57716
47576 - Calponin-homology domain, CH-domain
57716 - Glucocorticoid receptor-like (DNA-binding domain) | 0 | DIRECT |
48050,48056
48050 - Hemocyanin, N-terminal domain
48056 - Di-copper centre-containing domain | 0 | DIRECT |
48264,52218
48264 - Cytochrome P450
52218 - Flavoproteins | 0 | DIRECT |
48056,81296
48056 - Di-copper centre-containing domain
81296 - E set domains | 0 | DIRECT |
56512,52218
56512 - Nitric oxide (NO) synthase oxygenase domain
52218 - Flavoproteins | 0 | DIRECT |
49742,49742
49742 - PHM/PNGase F
49742 - PHM/PNGase F | 0 | DIRECT |
57196,48113
57196 - EGF/Laminin
48113 - Heme-dependent peroxidases | 0 | DIRECT |
51905,47576
51905 - FAD/NAD(P)-binding domain
47576 - Calponin-homology domain, CH-domain | 0 | DIRECT |
50022,55961
50022 - ISP domain
55961 - Bet v1-like | 0 | DIRECT |
46458,63380
46458 - Globin-like
63380 - Riboflavin synthase domain-like | 0 | DIRECT |
48452,51197
48452 - TPR-like
51197 - Clavaminate synthase-like | 0 | DIRECT |
57903,51197
57903 - FYVE/PHD zinc finger
51197 - Clavaminate synthase-like | 0 | DIRECT |
57716,57716
57716 - Glucocorticoid receptor-like (DNA-binding domain)
57716 - Glucocorticoid receptor-like (DNA-binding domain) | 5.316e-16 | DIRECT |
63380,52343
63380 - Riboflavin synthase domain-like
52343 - Ferredoxin reductase-like, C-terminal NADP-linked domain | 0.0000000001062 | DIRECT |
52343,54292
52343 - Ferredoxin reductase-like, C-terminal NADP-linked domain
54292 - 2Fe-2S ferredoxin-like | 0.000000002963 | DIRECT |
54292,63380
54292 - 2Fe-2S ferredoxin-like
63380 - Riboflavin synthase domain-like | 0.00005457 | DIRECT |
52218,63380
52218 - Flavoproteins
63380 - Riboflavin synthase domain-like | 0.003945 | INHERITED FROM: Unspecific monooxygenase || With NADH or NADPH as one donor, and incorporation of one atom of oxygen || Nitric-oxide synthase (NADPH) |
56645,47203
56645 - Acyl-CoA dehydrogenase NM domain-like
47203 - Acyl-CoA dehydrogenase C-terminal domain-like | 0.22 | INHERITED FROM: 4-hydroxyphenylacetate 3-monooxygenase || With reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen |
51905,54373
51905 - FAD/NAD(P)-binding domain
54373 - FAD-linked reductases, C-terminal domain | 0.9955 | INHERITED FROM: 6-hydroxynicotinate 3-monooxygenase || With NADH or NADPH as one donor, and incorporation of one atom of oxygen || 3-hydroxybenzoate 6-monooxygenase || 4-hydroxybenzoate 3-monooxygenase |
52540,52540
52540 - P-loop containing nucleoside triphosphate hydrolases
52540 - P-loop containing nucleoside triphosphate hydrolases | 1 | INHERITED FROM: Thymine dioxygenase |
| Supra-domain (Duplex) in N- to C-terminal order |
FDR (all) |
Annotation (direct or inherited) |
50022,56281
50022 - ISP domain
56281 - Metallo-hydrolase/oxidoreductase | 0 | Direct |
55021,56534
55021 - ACT-like
56534 - Aromatic aminoacid monoxygenases, catalytic and oligomerization domains | 0 | Direct |
51905,51905
51905 - FAD/NAD(P)-binding domain
51905 - FAD/NAD(P)-binding domain | 0 | Direct |
47576,57716
47576 - Calponin-homology domain, CH-domain
57716 - Glucocorticoid receptor-like (DNA-binding domain) | 0 | Direct |
48050,48056
48050 - Hemocyanin, N-terminal domain
48056 - Di-copper centre-containing domain | 0 | Direct |
48264,52218
48264 - Cytochrome P450
52218 - Flavoproteins | 0 | Direct |
48056,81296
48056 - Di-copper centre-containing domain
81296 - E set domains | 0 | Direct |
56512,52218
56512 - Nitric oxide (NO) synthase oxygenase domain
52218 - Flavoproteins | 0 | Direct |
49742,49742
49742 - PHM/PNGase F
49742 - PHM/PNGase F | 0 | Direct |
57196,48113
57196 - EGF/Laminin
48113 - Heme-dependent peroxidases | 0 | Direct |
51905,47576
51905 - FAD/NAD(P)-binding domain
47576 - Calponin-homology domain, CH-domain | 0 | Direct |
50022,55961
50022 - ISP domain
55961 - Bet v1-like | 0 | Direct |
46458,63380
46458 - Globin-like
63380 - Riboflavin synthase domain-like | 0 | Direct |
48452,51197
48452 - TPR-like
51197 - Clavaminate synthase-like | 0 | Direct |
57903,51197
57903 - FYVE/PHD zinc finger
51197 - Clavaminate synthase-like | 0 | Direct |
57716,57716
57716 - Glucocorticoid receptor-like (DNA-binding domain)
57716 - Glucocorticoid receptor-like (DNA-binding domain) | 5.316e-16 | Direct |
63380,52343
63380 - Riboflavin synthase domain-like
52343 - Ferredoxin reductase-like, C-terminal NADP-linked domain | 0.0000000001062 | Direct |
52343,54292
52343 - Ferredoxin reductase-like, C-terminal NADP-linked domain
54292 - 2Fe-2S ferredoxin-like | 0.000000002963 | Direct |
54292,63380
54292 - 2Fe-2S ferredoxin-like
63380 - Riboflavin synthase domain-like | 0.00005457 | Direct |
52218,63380
52218 - Flavoproteins
63380 - Riboflavin synthase domain-like | 0.003945 | Inherited |
56645,47203
56645 - Acyl-CoA dehydrogenase NM domain-like
47203 - Acyl-CoA dehydrogenase C-terminal domain-like | 0.22 | Inherited |
51905,54373
51905 - FAD/NAD(P)-binding domain
54373 - FAD-linked reductases, C-terminal domain | 0.9955 | Inherited |
52540,52540
52540 - P-loop containing nucleoside triphosphate hydrolases
52540 - P-loop containing nucleoside triphosphate hydrolases | 1 | Inherited |
(show details)
Supra-domains annotated to this EC term (SPEC level: Informative)
Highlighted in gray are those with FDR>0.001
| Supra-domain (Triple) in N- to C-terminal order |
FDR (all) |
Annotation (direct or inherited) |
48264,52218,63380
48264 - Cytochrome P450
52218 - Flavoproteins
63380 - Riboflavin synthase domain-like | 0 | DIRECT |
56512,52218,63380
56512 - Nitric oxide (NO) synthase oxygenase domain
52218 - Flavoproteins
63380 - Riboflavin synthase domain-like | 0 | DIRECT |
48050,48056,81296
48050 - Hemocyanin, N-terminal domain
48056 - Di-copper centre-containing domain
81296 - E set domains | 0 | DIRECT |
51905,47576,57716
51905 - FAD/NAD(P)-binding domain
47576 - Calponin-homology domain, CH-domain
57716 - Glucocorticoid receptor-like (DNA-binding domain) | 0 | DIRECT |
46458,63380,52343
46458 - Globin-like
63380 - Riboflavin synthase domain-like
52343 - Ferredoxin reductase-like, C-terminal NADP-linked domain | 0 | DIRECT |
47576,57716,57716
47576 - Calponin-homology domain, CH-domain
57716 - Glucocorticoid receptor-like (DNA-binding domain)
57716 - Glucocorticoid receptor-like (DNA-binding domain) | 0 | DIRECT |
63380,52343,54292
63380 - Riboflavin synthase domain-like
52343 - Ferredoxin reductase-like, C-terminal NADP-linked domain
54292 - 2Fe-2S ferredoxin-like | 0.000000002963 | DIRECT |
54292,63380,52343
54292 - 2Fe-2S ferredoxin-like
63380 - Riboflavin synthase domain-like
52343 - Ferredoxin reductase-like, C-terminal NADP-linked domain | 0.00005457 | DIRECT |
| Supra-domain (Triple) in N- to C-terminal order |
FDR (all) |
Annotation (direct or inherited) |
48264,52218,63380
48264 - Cytochrome P450
52218 - Flavoproteins
63380 - Riboflavin synthase domain-like | 0 | Direct |
56512,52218,63380
56512 - Nitric oxide (NO) synthase oxygenase domain
52218 - Flavoproteins
63380 - Riboflavin synthase domain-like | 0 | Direct |
48050,48056,81296
48050 - Hemocyanin, N-terminal domain
48056 - Di-copper centre-containing domain
81296 - E set domains | 0 | Direct |
51905,47576,57716
51905 - FAD/NAD(P)-binding domain
47576 - Calponin-homology domain, CH-domain
57716 - Glucocorticoid receptor-like (DNA-binding domain) | 0 | Direct |
46458,63380,52343
46458 - Globin-like
63380 - Riboflavin synthase domain-like
52343 - Ferredoxin reductase-like, C-terminal NADP-linked domain | 0 | Direct |
47576,57716,57716
47576 - Calponin-homology domain, CH-domain
57716 - Glucocorticoid receptor-like (DNA-binding domain)
57716 - Glucocorticoid receptor-like (DNA-binding domain) | 0 | Direct |
63380,52343,54292
63380 - Riboflavin synthase domain-like
52343 - Ferredoxin reductase-like, C-terminal NADP-linked domain
54292 - 2Fe-2S ferredoxin-like | 0.000000002963 | Direct |
54292,63380,52343
54292 - 2Fe-2S ferredoxin-like
63380 - Riboflavin synthase domain-like
52343 - Ferredoxin reductase-like, C-terminal NADP-linked domain | 0.00005457 | Direct |
Plot distribution on phylogenetic tree for Supra-domains (Single/Individual) annotated by this phenotype term
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