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Enzyme Commission (EC): Acting on a sulfur group of donors
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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)
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) |
Thioredoxin-like | 0 | DIRECT |
Mss4-like | 0 | DIRECT |
Ferredoxin thioredoxin reductase (FTR), catalytic beta chain | 0 | DIRECT |
FAD/NAD-linked reductases, dimerisation (C-terminal) domain | 0 | DIRECT |
Adenine nucleotide alpha hydrolases-like | 0 | DIRECT |
Nitrite/Sulfite reductase N-terminal domain-like | 0 | DIRECT |
3-carboxy-cis,cis-mucoante lactonizing enzyme | 0 | DIRECT |
Nitrite and sulphite reductase 4Fe-4S domain-like | 0 | DIRECT |
FAD/NAD(P)-binding domain | 0 | DIRECT |
Thiol:disulfide interchange protein DsbD, N-terminal domain (DsbD-alpha) | 0 | DIRECT |
Peptide methionine sulfoxide reductase | 0 | DIRECT |
FAD-dependent thiol oxidase | 0 | DIRECT |
GST C-terminal domain-like | 0.000000000000001017 | DIRECT |
ParB/Sulfiredoxin | 0.000000000000007489 | DIRECT |
Riboflavin synthase domain-like | 0.000000000000244 | DIRECT |
Ferredoxin reductase-like, C-terminal NADP-linked domain | 0.000000000000421 | DIRECT |
C-type lectin-like | 0.0000006406 | DIRECT |
Flavoproteins | 0.000001466 | DIRECT |
Respiratory nitrate reductase 1 gamma chain | 0.000008081 | DIRECT |
Oxidoreductase molybdopterin-binding domain | 0.0008008 | DIRECT |
Cysteine-rich domain | 0.001072 | INHERITED FROM: With NAD(+) or NADP(+) as acceptor || Protein-disulfide reductase |
alpha-helical ferredoxin | 0.007167 | INHERITED FROM: With other, known, acceptors || With an iron-sulfur protein as acceptor || Ferredoxin:CoB-CoM heterodisulfide reductase |
Cytochrome c | 0.01812 | INHERITED FROM: With a cytochrome as acceptor || Thiosulfate dehydrogenase |
E set domains | 0.06477 | INHERITED FROM: Sulfite oxidase || With oxygen as acceptor |
Nucleotide-binding domain | 0.07499 | INHERITED FROM: Trypanothione-disulfide reductase || With NAD(+) or NADP(+) as acceptor |
Cytochrome b5-like heme/steroid binding domain | 0.1864 | INHERITED FROM: Sulfite oxidase || With oxygen as acceptor |
ADC-like | 0.307 | INHERITED FROM: Respiratory dimethylsulfoxide reductase || With a quinone or similar compound as acceptor |
4Fe-4S ferredoxins | 0.3341 | INHERITED FROM: Dissimilatory sulfite reductase || With other, known, acceptors || With an iron-sulfur protein as acceptor || Ferredoxin:CoB-CoM heterodisulfide reductase || With other acceptors |
Formate dehydrogenase/DMSO reductase, domains 1-3 | 0.4288 | INHERITED FROM: Respiratory dimethylsulfoxide reductase || With a quinone or similar compound as acceptor |
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Family(show details)
Family domains annotated to this EC term (Not in SDEC)
Highlighted in gray are those with FDR_all>0.001
SCOP term | FDR (all) | Annotation (direct or inherited) |
FAD/NAD-linked reductases, dimerisation (C-terminal) domain | 0 | DIRECT |
Peptide methionine sulfoxide reductase | 0 | DIRECT |
NADPH-cytochrome p450 reductase-like | 0 | DIRECT |
NADPH-cytochrome p450 reductase FAD-binding domain-like | 0 | DIRECT |
Nitrite and sulphite reductase 4Fe-4S domain-like | 0 | DIRECT |
Sulfiredoxin-like | 0 | DIRECT |
FAD-dependent thiol oxidase | 0 | DIRECT |
PAPS reductase-like | 0 | DIRECT |
Ferredoxin thioredoxin reductase (FTR), catalytic beta chain | 0 | DIRECT |
Thioltransferase | 0 | DIRECT |
SelR domain | 0 | DIRECT |
Duplicated SiR/NiR-like domains 1 and 3 | 0 | DIRECT |
DsrA/DsrB N-terminal-domain-like | 0 | DIRECT |
Cytochrome p450 reductase N-terminal domain-like | 0 | DIRECT |
C1-like domain | 0 | DIRECT |
Thiol:disulfide interchange protein DsbD, N-terminal domain (DsbD-alpha) | 0 | DIRECT |
FAD/NAD-linked reductases, N-terminal and central domains | 0 | DIRECT |
Glutathione S-transferase (GST), N-terminal domain | 0.000000000001552 | DIRECT |
Glutathione S-transferase (GST), C-terminal domain | 0.00000000002744 | DIRECT |
Sulfatase-modifying factor-like | 0.0000006219 | DIRECT |
Oxidoreductase molybdopterin-binding domain | 0.000812 | DIRECT |
Molybdenum-containing oxidoreductases-like dimerisation domain | 0.0009628 | DIRECT |
Pyruvate-ferredoxin oxidoreductase, PFOR, domain II | 0.003717 | INHERITED FROM: Assimilatory sulfite reductase (NADPH) || With NAD(+) or NADP(+) as acceptor |
Ferredoxin domains from multidomain proteins | 0.098 | INHERITED FROM: Dissimilatory sulfite reductase || With other acceptors |
Cytochrome b5 | 0.1583 | INHERITED FROM: Sulfite oxidase || With oxygen as acceptor |
Formate dehydrogenase/DMSO reductase, C-terminal domain | 0.4225 | INHERITED FROM: Respiratory dimethylsulfoxide reductase || With a quinone or similar compound as acceptor |
Formate dehydrogenase/DMSO reductase, domains 1-3 | 0.4278 | INHERITED FROM: Respiratory dimethylsulfoxide reductase || With a quinone or similar compound as acceptor |
Glutathione peroxidase-like | 0.7348 | INHERITED FROM: Peptide-methionine (R)-S-oxide reductase || Protein-disulfide reductase |
SCOP term | FDR (all) | Annotation (direct or inherited) |
FAD/NAD-linked reductases, dimerisation (C-terminal) domain | 0 | Direct |
Peptide methionine sulfoxide reductase | 0 | Direct |
NADPH-cytochrome p450 reductase-like | 0 | Direct |
NADPH-cytochrome p450 reductase FAD-binding domain-like | 0 | Direct |
Nitrite and sulphite reductase 4Fe-4S domain-like | 0 | Direct |
Sulfiredoxin-like | 0 | Direct |
FAD-dependent thiol oxidase | 0 | Direct |
PAPS reductase-like | 0 | Direct |
Ferredoxin thioredoxin reductase (FTR), catalytic beta chain | 0 | Direct |
Thioltransferase | 0 | Direct |
SelR domain | 0 | Direct |
Duplicated SiR/NiR-like domains 1 and 3 | 0 | Direct |
DsrA/DsrB N-terminal-domain-like | 0 | Direct |
Cytochrome p450 reductase N-terminal domain-like | 0 | Direct |
C1-like domain | 0 | Direct |
Thiol:disulfide interchange protein DsbD, N-terminal domain (DsbD-alpha) | 0 | Direct |
FAD/NAD-linked reductases, N-terminal and central domains | 0 | Direct |
Glutathione S-transferase (GST), N-terminal domain | 0.000000000001552 | Direct |
Glutathione S-transferase (GST), C-terminal domain | 0.00000000002744 | Direct |
Sulfatase-modifying factor-like | 0.0000006219 | Direct |
Oxidoreductase molybdopterin-binding domain | 0.000812 | Direct |
Molybdenum-containing oxidoreductases-like dimerisation domain | 0.0009628 | Direct |
Pyruvate-ferredoxin oxidoreductase, PFOR, domain II | 0.003717 | Inherited |
Ferredoxin domains from multidomain proteins | 0.098 | Inherited |
Cytochrome b5 | 0.1583 | Inherited |
Formate dehydrogenase/DMSO reductase, C-terminal domain | 0.4225 | Inherited |
Formate dehydrogenase/DMSO reductase, domains 1-3 | 0.4278 | Inherited |
Glutathione peroxidase-like | 0.7348 | 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) |
Adenine nucleotide alpha hydrolases-like | 0 | DIRECT |
Nitrite/Sulfite reductase N-terminal domain-like | 0 | DIRECT |
Peptide methionine sulfoxide reductase | 0 | DIRECT |
FAD-dependent thiol oxidase | 0 | DIRECT |
Thioredoxin-like | 0 | DIRECT |
Ferredoxin thioredoxin reductase (FTR), catalytic beta chain | 0 | DIRECT |
Nitrite and sulphite reductase 4Fe-4S domain-like | 0 | DIRECT |
FAD/NAD-linked reductases, dimerisation (C-terminal) domain | 0 | DIRECT |
Mss4-like | 0 | DIRECT |
3-carboxy-cis,cis-mucoante lactonizing enzyme | 0 | DIRECT |
Thiol:disulfide interchange protein DsbD, N-terminal domain (DsbD-alpha) | 0 | DIRECT |
FAD/NAD(P)-binding domain | 0 | DIRECT |
GST C-terminal domain-like | 7.073e-16 | DIRECT |
ParB/Sulfiredoxin | 0.000000000000005248 | DIRECT |
Riboflavin synthase domain-like | 0.0000000000001737 | DIRECT |
Ferredoxin reductase-like, C-terminal NADP-linked domain | 0.0000000000003007 | DIRECT |
C-type lectin-like | 0.0000004973 | DIRECT |
Flavoproteins | 0.000001145 | DIRECT |
Respiratory nitrate reductase 1 gamma chain | 0.000006375 | DIRECT |
Oxidoreductase molybdopterin-binding domain | 0.0006584 | DIRECT |
Cysteine-rich domain | 0.000884 | DIRECT |
alpha-helical ferredoxin | 0.006039 | INHERITED FROM: With an iron-sulfur protein as acceptor || Ferredoxin:CoB-CoM heterodisulfide reductase || With other, known, acceptors |
Cytochrome c | 0.01545 | INHERITED FROM: Thiosulfate dehydrogenase || With a cytochrome as acceptor |
E set domains | 0.05618 | INHERITED FROM: Sulfite oxidase || With oxygen as acceptor |
Nucleotide-binding domain | 0.06513 | INHERITED FROM: With NAD(+) or NADP(+) as acceptor || Trypanothione-disulfide reductase |
Cytochrome b5-like heme/steroid binding domain | 0.1648 | INHERITED FROM: Sulfite oxidase || With oxygen as acceptor |
ADC-like | 0.277 | INHERITED FROM: Respiratory dimethylsulfoxide reductase || With a quinone or similar compound as acceptor |
4Fe-4S ferredoxins | 0.3019 | INHERITED FROM: With other acceptors || With an iron-sulfur protein as acceptor || Dissimilatory sulfite reductase || Ferredoxin:CoB-CoM heterodisulfide reductase || With other, known, acceptors |
Formate dehydrogenase/DMSO reductase, domains 1-3 | 0.3897 | INHERITED FROM: Respiratory dimethylsulfoxide reductase || With a quinone or similar compound as acceptor |
TK C-terminal domain-like | 0.6609 | INHERITED FROM: Assimilatory sulfite reductase (NADPH) |
(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) |
55124,54862 55124 - Nitrite/Sulfite reductase N-terminal domain-like 54862 - 4Fe-4S ferredoxins | 0 | DIRECT |
55124,56014 55124 - Nitrite/Sulfite reductase N-terminal domain-like 56014 - Nitrite and sulphite reductase 4Fe-4S domain-like | 0 | DIRECT |
55068,51316 55068 - Peptide methionine sulfoxide reductase 51316 - Mss4-like | 0 | DIRECT |
52402,52833 52402 - Adenine nucleotide alpha hydrolases-like 52833 - Thioredoxin-like | 0 | DIRECT |
55856,56524 55856 - Cytochrome b5-like heme/steroid binding domain 56524 - Oxidoreductase molybdopterin-binding domain | 0 | DIRECT |
51905,55424 51905 - FAD/NAD(P)-binding domain 55424 - FAD/NAD-linked reductases, dimerisation (C-terminal) domain | 0 | DIRECT |
52833,57889 52833 - Thioredoxin-like 57889 - Cysteine-rich domain | 0 | DIRECT |
51905,52833 51905 - FAD/NAD(P)-binding domain 52833 - Thioredoxin-like | 0 | DIRECT |
51905,54862 51905 - FAD/NAD(P)-binding domain 54862 - 4Fe-4S ferredoxins | 0 | DIRECT |
56014,55124 56014 - Nitrite and sulphite reductase 4Fe-4S domain-like 55124 - Nitrite/Sulfite reductase N-terminal domain-like | 0 | DIRECT |
52833,55068 52833 - Thioredoxin-like 55068 - Peptide methionine sulfoxide reductase | 0 | DIRECT |
52218,63380 52218 - Flavoproteins 63380 - Riboflavin synthase domain-like | 0 | DIRECT |
54862,56014 54862 - 4Fe-4S ferredoxins 56014 - Nitrite and sulphite reductase 4Fe-4S domain-like | 0 | DIRECT |
63380,52343 63380 - Riboflavin synthase domain-like 52343 - Ferredoxin reductase-like, C-terminal NADP-linked domain | 5.316e-16 | DIRECT |
52833,47616 52833 - Thioredoxin-like 47616 - GST C-terminal domain-like | 0.0000000000000263 | DIRECT |
52833,52833 52833 - Thioredoxin-like 52833 - Thioredoxin-like | 0.000000000001766 | DIRECT |
51971,51905 51971 - Nucleotide-binding domain 51905 - FAD/NAD(P)-binding domain | 0.00001126 | DIRECT |
46626,46626 46626 - Cytochrome c 46626 - Cytochrome c | 0.0001874 | DIRECT |
56524,81296 56524 - Oxidoreductase molybdopterin-binding domain 81296 - E set domains | 0.0006584 | DIRECT |
53706,50692 53706 - Formate dehydrogenase/DMSO reductase, domains 1-3 50692 - ADC-like | 0.2405 | INHERITED FROM: Respiratory dimethylsulfoxide reductase || With a quinone or similar compound as acceptor |
51905,51905 51905 - FAD/NAD(P)-binding domain 51905 - FAD/NAD(P)-binding domain | 0.5861 | INHERITED FROM: Bacterial sulfide:quinone reductase || With a quinone or similar compound as acceptor |
Supra-domain (Duplex) in N- to C-terminal order |
FDR (all) |
Annotation (direct or inherited) |
55124,54862 55124 - Nitrite/Sulfite reductase N-terminal domain-like 54862 - 4Fe-4S ferredoxins | 0 | Direct |
55124,56014 55124 - Nitrite/Sulfite reductase N-terminal domain-like 56014 - Nitrite and sulphite reductase 4Fe-4S domain-like | 0 | Direct |
55068,51316 55068 - Peptide methionine sulfoxide reductase 51316 - Mss4-like | 0 | Direct |
52402,52833 52402 - Adenine nucleotide alpha hydrolases-like 52833 - Thioredoxin-like | 0 | Direct |
55856,56524 55856 - Cytochrome b5-like heme/steroid binding domain 56524 - Oxidoreductase molybdopterin-binding domain | 0 | Direct |
51905,55424 51905 - FAD/NAD(P)-binding domain 55424 - FAD/NAD-linked reductases, dimerisation (C-terminal) domain | 0 | Direct |
52833,57889 52833 - Thioredoxin-like 57889 - Cysteine-rich domain | 0 | Direct |
51905,52833 51905 - FAD/NAD(P)-binding domain 52833 - Thioredoxin-like | 0 | Direct |
51905,54862 51905 - FAD/NAD(P)-binding domain 54862 - 4Fe-4S ferredoxins | 0 | Direct |
56014,55124 56014 - Nitrite and sulphite reductase 4Fe-4S domain-like 55124 - Nitrite/Sulfite reductase N-terminal domain-like | 0 | Direct |
52833,55068 52833 - Thioredoxin-like 55068 - Peptide methionine sulfoxide reductase | 0 | Direct |
52218,63380 52218 - Flavoproteins 63380 - Riboflavin synthase domain-like | 0 | Direct |
54862,56014 54862 - 4Fe-4S ferredoxins 56014 - Nitrite and sulphite reductase 4Fe-4S domain-like | 0 | Direct |
63380,52343 63380 - Riboflavin synthase domain-like 52343 - Ferredoxin reductase-like, C-terminal NADP-linked domain | 5.316e-16 | Direct |
52833,47616 52833 - Thioredoxin-like 47616 - GST C-terminal domain-like | 0.0000000000000263 | Direct |
52833,52833 52833 - Thioredoxin-like 52833 - Thioredoxin-like | 0.000000000001766 | Direct |
51971,51905 51971 - Nucleotide-binding domain 51905 - FAD/NAD(P)-binding domain | 0.00001126 | Direct |
46626,46626 46626 - Cytochrome c 46626 - Cytochrome c | 0.0001874 | Direct |
56524,81296 56524 - Oxidoreductase molybdopterin-binding domain 81296 - E set domains | 0.0006584 | Direct |
53706,50692 53706 - Formate dehydrogenase/DMSO reductase, domains 1-3 50692 - ADC-like | 0.2405 | Inherited |
51905,51905 51905 - FAD/NAD(P)-binding domain 51905 - FAD/NAD(P)-binding domain | 0.5861 | 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) |
51971,51905,55424 51971 - Nucleotide-binding domain 51905 - FAD/NAD(P)-binding domain 55424 - FAD/NAD-linked reductases, dimerisation (C-terminal) domain | 0 | DIRECT |
55124,56014,55124 55124 - Nitrite/Sulfite reductase N-terminal domain-like 56014 - Nitrite and sulphite reductase 4Fe-4S domain-like 55124 - Nitrite/Sulfite reductase N-terminal domain-like | 0 | DIRECT |
55124,54862,56014 55124 - Nitrite/Sulfite reductase N-terminal domain-like 54862 - 4Fe-4S ferredoxins 56014 - Nitrite and sulphite reductase 4Fe-4S domain-like | 0 | DIRECT |
56014,55124,56014 56014 - Nitrite and sulphite reductase 4Fe-4S domain-like 55124 - Nitrite/Sulfite reductase N-terminal domain-like 56014 - Nitrite and sulphite reductase 4Fe-4S domain-like | 0 | DIRECT |
52833,52833,57889 52833 - Thioredoxin-like 52833 - Thioredoxin-like 57889 - Cysteine-rich domain | 0 | DIRECT |
52833,55068,51316 52833 - Thioredoxin-like 55068 - Peptide methionine sulfoxide reductase 51316 - Mss4-like | 0 | DIRECT |
52218,63380,52343 52218 - Flavoproteins 63380 - Riboflavin synthase domain-like 52343 - Ferredoxin reductase-like, C-terminal NADP-linked domain | 0 | DIRECT |
55856,56524,81296 55856 - Cytochrome b5-like heme/steroid binding domain 56524 - Oxidoreductase molybdopterin-binding domain 81296 - E set domains | 0 | DIRECT |
52833,52833,52833 52833 - Thioredoxin-like 52833 - Thioredoxin-like 52833 - Thioredoxin-like | 0.000000003024 | DIRECT |
Supra-domain (Triple) in N- to C-terminal order |
FDR (all) |
Annotation (direct or inherited) |
51971,51905,55424 51971 - Nucleotide-binding domain 51905 - FAD/NAD(P)-binding domain 55424 - FAD/NAD-linked reductases, dimerisation (C-terminal) domain | 0 | Direct |
55124,56014,55124 55124 - Nitrite/Sulfite reductase N-terminal domain-like 56014 - Nitrite and sulphite reductase 4Fe-4S domain-like 55124 - Nitrite/Sulfite reductase N-terminal domain-like | 0 | Direct |
55124,54862,56014 55124 - Nitrite/Sulfite reductase N-terminal domain-like 54862 - 4Fe-4S ferredoxins 56014 - Nitrite and sulphite reductase 4Fe-4S domain-like | 0 | Direct |
56014,55124,56014 56014 - Nitrite and sulphite reductase 4Fe-4S domain-like 55124 - Nitrite/Sulfite reductase N-terminal domain-like 56014 - Nitrite and sulphite reductase 4Fe-4S domain-like | 0 | Direct |
52833,52833,57889 52833 - Thioredoxin-like 52833 - Thioredoxin-like 57889 - Cysteine-rich domain | 0 | Direct |
52833,55068,51316 52833 - Thioredoxin-like 55068 - Peptide methionine sulfoxide reductase 51316 - Mss4-like | 0 | Direct |
52218,63380,52343 52218 - Flavoproteins 63380 - Riboflavin synthase domain-like 52343 - Ferredoxin reductase-like, C-terminal NADP-linked domain | 0 | Direct |
55856,56524,81296 55856 - Cytochrome b5-like heme/steroid binding domain 56524 - Oxidoreductase molybdopterin-binding domain 81296 - E set domains | 0 | Direct |
52833,52833,52833 52833 - Thioredoxin-like 52833 - Thioredoxin-like 52833 - Thioredoxin-like | 0.000000003024 | Direct |
Plot distribution on phylogenetic tree for Supra-domains (Single/Individual) annotated by this phenotype term
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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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