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Disease Ontology (DO): nervous system disease
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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: DO Hierarchy (disease ontology from University of Maryland)
Jump to [ Top · Phenotype Hierarchy · Superfamily · Family · Supra-domain ]
Superfamily(show details)
Jump to [ Top · Phenotype Hierarchy · Superfamily · Family · Supra-domain ]
Family(show details)
Family domains annotated to this DO term (SDDO level: Least Informative)
Highlighted in gray are those with FDR_all>0.001
| SCOP term | FDR (all) | Annotation (direct or inherited) |
| p53 DNA-binding domain-like | 0 | DIRECT |
| Nitric oxide (NO) synthase oxygenase domain | 0 | DIRECT |
| Synuclein | 0 | DIRECT |
| Serum paraoxonase/arylesterase 1, PON1 | 0 | DIRECT |
| Transferrin | 0 | DIRECT |
| Neurotrophin | 0 | DIRECT |
| p53 tetramerization domain | 0 | DIRECT |
| 2'-5'-oligoadenylate synthetase 1, OAS1, N-terminal domain | 0 | DIRECT |
| Multidomain cupredoxins | 0 | DIRECT |
| Pentraxin (pentaxin) | 0 | DIRECT |
| 2'-5'-oligoadenylate synthetase 1, OAS1, second domain | 0 | DIRECT |
| Cu,Zn superoxide dismutase-like | 0 | DIRECT |
| Crystallins/Ca-binding development proteins | 0.00001212 | DIRECT |
| L-arabinose binding protein-like | 0.00007305 | DIRECT |
| Neurotransmitter-gated ion-channel transmembrane pore | 0.0007152 | DIRECT |
| Nicotinic receptor ligand binding domain-like | 0.0007152 | DIRECT |
| C2 set domains | 0.0007402 | DIRECT |
| Phosphate binding protein-like | 0.0007782 | DIRECT |
| L domain | 0.001501 | INHERITED FROM: neuropathy |
| Inhibitor of apoptosis (IAP) repeat | 0.005953 | INHERITED FROM: demyelinating disease || multiple sclerosis |
| Glutathione peroxidase-like | 0.006577 | INHERITED FROM: Parkinson's disease || Pick's disease |
| C1 set domains (antibody constant domain-like) | 0.008057 | INHERITED FROM: neuromuscular junction disease || demyelinating disease || multiple sclerosis || neuromyelitis optica || uveitis |
| Kringle modules | 0.0121 | INHERITED FROM: cerebral degeneration || leukodystrophy |
| MHC antigen-recognition domain | 0.01255 | INHERITED FROM: neuromuscular junction disease || demyelinating disease || multiple sclerosis || neuromyelitis optica || uveitis |
| Aromatic aminoacid monoxygenases, catalytic and oligomerization domains | 0.01418 | INHERITED FROM: brain disease |
| Phenylalanine metabolism regulatory domain | 0.01418 | INHERITED FROM: brain disease |
| Complement components | 0.04111 | INHERITED FROM: demyelinating disease || multiple sclerosis |
| Alpha-macroglobulin receptor domain | 0.04111 | INHERITED FROM: demyelinating disease || multiple sclerosis |
| NADPH-cytochrome p450 reductase-like | 0.04111 | INHERITED FROM: neurodegenerative disease || Alzheimer's disease || migraine |
| NADPH-cytochrome p450 reductase FAD-binding domain-like | 0.04111 | INHERITED FROM: neurodegenerative disease || Alzheimer's disease || migraine |
| Long-chain cytokines | 0.05311 | INHERITED FROM: central nervous system disease || multiple sclerosis |
| Ngr ectodomain-like | 0.05548 | INHERITED FROM: corneal disease || myopia |
| Complement control module/SCR domain | 0.05548 | INHERITED FROM: macular degeneration || degeneration of macula and posterior pole || eye disease |
| Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain | 0.06825 | INHERITED FROM: neuropathy || neuromuscular disease || Charcot-Marie-Tooth disease |
| Interleukin 17F, IL-17F | 0.07985 | INHERITED FROM: demyelinating disease || multiple sclerosis |
| Cytochrome p450 reductase N-terminal domain-like | 0.07985 | INHERITED FROM: Alzheimer's disease || migraine || brain disease || tauopathy |
| Cation efflux protein transmembrane domain-like | 0.07985 | INHERITED FROM: Alzheimer's disease || tauopathy |
| Proton glutamate symport protein | 0.08422 | INHERITED FROM: demyelinating disease || multiple sclerosis |
| Aquaporin-like | 0.08759 | INHERITED FROM: peripheral vertigo || inner ear disease || sensory system disease || Meniere's disease || vestibular disease |
| TNF-like | 0.09808 | INHERITED FROM: primary open angle glaucoma || demyelinating disease || meningitis || multiple sclerosis || open-angle glaucoma |
| MMP N-terminal domain | 0.1015 | INHERITED FROM: myopia || refractive error |
| Matrix metalloproteases, catalytic domain | 0.1116 | INHERITED FROM: myopia || refractive error |
| Mitochondrial carrier | 0.1976 | INHERITED FROM: diabetic neuropathy || peripheral nervous system disease |
| Motor proteins | 0.2359 | INHERITED FROM: inner ear disease || sensorineural hearing loss || auditory system disease |
| Tetramerization domain of potassium channels | 0.2361 | INHERITED FROM: epilepsy |
| YWTD domain | 0.2361 | INHERITED FROM: Alzheimer's disease || tauopathy |
| ABC transporter ATPase domain-like | 0.2593 | INHERITED FROM: leukodystrophy || adrenoleukodystrophy |
| ABC transporter transmembrane region | 0.3235 | INHERITED FROM: epilepsy |
| Insulin-like | 0.3432 | INHERITED FROM: motor neuron disease || Parkinson's disease || synucleinopathy |
| Interleukin-1 (IL-1) | 0.3436 | INHERITED FROM: primary open angle glaucoma || brain disease || glaucoma || open-angle glaucoma |
| Hemopexin-like domain | 0.4217 | INHERITED FROM: myopia || refractive error |
| Bcl-2 inhibitors of programmed cell death | 0.4668 | INHERITED FROM: toxic encephalopathy |
| V set domains (antibody variable domain-like) | 0.4682 | INHERITED FROM: demyelinating disease || multiple sclerosis |
| Calmodulin-like | 0.4835 | INHERITED FROM: epilepsy |
| Fibronectin type III | 0.5427 | INHERITED FROM: demyelinating disease |
| TNF receptor-like | 0.5745 | INHERITED FROM: multiple sclerosis |
| Phoshoinositide 3-kinase (PI3K), catalytic domain | 0.5824 | INHERITED FROM: hereditary ataxia || ataxia telangiectasia || autosomal recessive cerebellar ataxia |
| Rhodopsin-like | 0.6342 | INHERITED FROM: migraine |
| Transforming growth factor (TGF)-beta | 0.8355 | INHERITED FROM: keratopathy || corneal edema || otosclerosis |
| Toll/Interleukin receptor TIR domain | 0.8873 | INHERITED FROM: meningitis |
| Interleukin 8-like chemokines | 1 | INHERITED FROM: demyelinating disease || multiple sclerosis |
| SCOP term | FDR (all) | Annotation (direct or inherited) |
| p53 DNA-binding domain-like | 0 | Direct |
| Nitric oxide (NO) synthase oxygenase domain | 0 | Direct |
| Synuclein | 0 | Direct |
| Serum paraoxonase/arylesterase 1, PON1 | 0 | Direct |
| Transferrin | 0 | Direct |
| Neurotrophin | 0 | Direct |
| p53 tetramerization domain | 0 | Direct |
| 2'-5'-oligoadenylate synthetase 1, OAS1, N-terminal domain | 0 | Direct |
| Multidomain cupredoxins | 0 | Direct |
| Pentraxin (pentaxin) | 0 | Direct |
| 2'-5'-oligoadenylate synthetase 1, OAS1, second domain | 0 | Direct |
| Cu,Zn superoxide dismutase-like | 0 | Direct |
| Crystallins/Ca-binding development proteins | 0.00001212 | Direct |
| L-arabinose binding protein-like | 0.00007305 | Direct |
| Neurotransmitter-gated ion-channel transmembrane pore | 0.0007152 | Direct |
| Nicotinic receptor ligand binding domain-like | 0.0007152 | Direct |
| C2 set domains | 0.0007402 | Direct |
| Phosphate binding protein-like | 0.0007782 | Direct |
| L domain | 0.001501 | Inherited |
| Inhibitor of apoptosis (IAP) repeat | 0.005953 | Inherited |
| Glutathione peroxidase-like | 0.006577 | Inherited |
| C1 set domains (antibody constant domain-like) | 0.008057 | Inherited |
| Kringle modules | 0.0121 | Inherited |
| MHC antigen-recognition domain | 0.01255 | Inherited |
| Aromatic aminoacid monoxygenases, catalytic and oligomerization domains | 0.01418 | Inherited |
| Phenylalanine metabolism regulatory domain | 0.01418 | Inherited |
| Complement components | 0.04111 | Inherited |
| Alpha-macroglobulin receptor domain | 0.04111 | Inherited |
| NADPH-cytochrome p450 reductase-like | 0.04111 | Inherited |
| NADPH-cytochrome p450 reductase FAD-binding domain-like | 0.04111 | Inherited |
| Long-chain cytokines | 0.05311 | Inherited |
| Ngr ectodomain-like | 0.05548 | Inherited |
| Complement control module/SCR domain | 0.05548 | Inherited |
| Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain | 0.06825 | Inherited |
| Interleukin 17F, IL-17F | 0.07985 | Inherited |
| Cytochrome p450 reductase N-terminal domain-like | 0.07985 | Inherited |
| Cation efflux protein transmembrane domain-like | 0.07985 | Inherited |
| Proton glutamate symport protein | 0.08422 | Inherited |
| Aquaporin-like | 0.08759 | Inherited |
| TNF-like | 0.09808 | Inherited |
| MMP N-terminal domain | 0.1015 | Inherited |
| Matrix metalloproteases, catalytic domain | 0.1116 | Inherited |
| Mitochondrial carrier | 0.1976 | Inherited |
| Motor proteins | 0.2359 | Inherited |
| Tetramerization domain of potassium channels | 0.2361 | Inherited |
| YWTD domain | 0.2361 | Inherited |
| ABC transporter ATPase domain-like | 0.2593 | Inherited |
| ABC transporter transmembrane region | 0.3235 | Inherited |
| Insulin-like | 0.3432 | Inherited |
| Interleukin-1 (IL-1) | 0.3436 | Inherited |
| Hemopexin-like domain | 0.4217 | Inherited |
| Bcl-2 inhibitors of programmed cell death | 0.4668 | Inherited |
| V set domains (antibody variable domain-like) | 0.4682 | Inherited |
| Calmodulin-like | 0.4835 | Inherited |
| Fibronectin type III | 0.5427 | Inherited |
| TNF receptor-like | 0.5745 | Inherited |
| Phoshoinositide 3-kinase (PI3K), catalytic domain | 0.5824 | Inherited |
| Rhodopsin-like | 0.6342 | Inherited |
| Transforming growth factor (TGF)-beta | 0.8355 | Inherited |
| Toll/Interleukin receptor TIR domain | 0.8873 | Inherited |
| Interleukin 8-like chemokines | 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)
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(show details)
Supra-domains annotated to this DO term (SPDO level: Least 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) |
50729,50156
50729 - PH domain-like
50156 - PDZ domain-like | 0 | DIRECT |
49417,47719
49417 - p53-like transcription factors
47719 - p53 tetramerization domain | 0 | DIRECT |
57196,90193
57196 - EGF/Laminin
90193 - Notch domain | 0 | DIRECT |
57440,57440
57440 - Kringle-like
57440 - Kringle-like | 0 | DIRECT |
53850,53850
53850 - Periplasmic binding protein-like II
53850 - Periplasmic binding protein-like II | 0 | DIRECT |
49503,49503
49503 - Cupredoxins
49503 - Cupredoxins | 0 | DIRECT |
57414,57440
57414 - Hairpin loop containing domain-like
57440 - Kringle-like | 0 | DIRECT |
57924,57924
57924 - Inhibitor of apoptosis (IAP) repeat
57924 - Inhibitor of apoptosis (IAP) repeat | 0 | DIRECT |
81324,53850
81324 - Voltage-gated potassium channels
53850 - Periplasmic binding protein-like II | 0 | DIRECT |
57196,49899
57196 - EGF/Laminin
49899 - Concanavalin A-like lectins/glucanases | 0 | DIRECT |
63712,90112
63712 - Nicotinic receptor ligand binding domain-like
90112 - Neurotransmitter-gated ion-channel transmembrane pore | 0.0004721 | DIRECT |
57184,52058
57184 - Growth factor receptor domain
52058 - L domain-like | 0.001283 | INHERITED FROM: neuropathy |
52058,57184
52058 - L domain-like
57184 - Growth factor receptor domain | 0.001283 | INHERITED FROM: neuropathy |
57440,50494
57440 - Kringle-like
50494 - Trypsin-like serine proteases | 0.005287 | INHERITED FROM: leukodystrophy || central nervous system disease || cerebral degeneration |
54452,48726
54452 - MHC antigen-recognition domain
48726 - Immunoglobulin | 0.006271 | INHERITED FROM: neuromuscular junction disease || demyelinating disease || uveitis || multiple sclerosis || neuromyelitis optica |
57535,57535
57535 - Complement control module/SCR domain
57535 - Complement control module/SCR domain | 0.02119 | INHERITED FROM: macular degeneration || retinal degeneration || eye disease || degeneration of macula and posterior pole || retinal disease |
53822,53850
53822 - Periplasmic binding protein-like I
53850 - Periplasmic binding protein-like II | 0.03962 | INHERITED FROM: neurodegenerative disease |
57424,57184
57424 - LDL receptor-like module
57184 - Growth factor receptor domain | 0.07768 | INHERITED FROM: tauopathy || Alzheimer's disease |
57184,63825
57184 - Growth factor receptor domain
63825 - YWTD domain | 0.07768 | INHERITED FROM: tauopathy || Alzheimer's disease |
90123,52540
90123 - ABC transporter transmembrane region
52540 - P-loop containing nucleoside triphosphate hydrolases | 0.08524 | INHERITED FROM: leukodystrophy || adrenoleukodystrophy || brain disease |
47090,55486
47090 - PGBD-like
55486 - Metalloproteases ("zincins"), catalytic domain | 0.09743 | INHERITED FROM: refractive error || myopia |
57424,57424
57424 - LDL receptor-like module
57424 - LDL receptor-like module | 0.1594 | INHERITED FROM: tauopathy || Alzheimer's disease |
49723,48484
49723 - Lipase/lipooxygenase domain (PLAT/LH2 domain)
48484 - Lipoxigenase | 0.1952 | INHERITED FROM: tauopathy || Alzheimer's disease |
49899,49899
49899 - Concanavalin A-like lectins/glucanases
49899 - Concanavalin A-like lectins/glucanases | 0.3073 | INHERITED FROM: retinal degeneration || retinitis || retinitis pigmentosa |
49265,49265
49265 - Fibronectin type III
49265 - Fibronectin type III | 0.3394 | INHERITED FROM: demyelinating disease || multiple sclerosis |
48371,48371
48371 - ARM repeat
48371 - ARM repeat | 0.4437 | INHERITED FROM: hereditary ataxia || ataxia telangiectasia || autosomal recessive cerebellar ataxia |
57586,57586
57586 - TNF receptor-like
57586 - TNF receptor-like | 0.6386 | INHERITED FROM: multiple sclerosis |
48726,48726
48726 - Immunoglobulin
48726 - Immunoglobulin | 0.8887 | INHERITED FROM: demyelinating disease || multiple sclerosis |
| Supra-domain (Duplex) in N- to C-terminal order |
FDR (all) |
Annotation (direct or inherited) |
50729,50156
50729 - PH domain-like
50156 - PDZ domain-like | 0 | Direct |
49417,47719
49417 - p53-like transcription factors
47719 - p53 tetramerization domain | 0 | Direct |
57196,90193
57196 - EGF/Laminin
90193 - Notch domain | 0 | Direct |
57440,57440
57440 - Kringle-like
57440 - Kringle-like | 0 | Direct |
53850,53850
53850 - Periplasmic binding protein-like II
53850 - Periplasmic binding protein-like II | 0 | Direct |
49503,49503
49503 - Cupredoxins
49503 - Cupredoxins | 0 | Direct |
57414,57440
57414 - Hairpin loop containing domain-like
57440 - Kringle-like | 0 | Direct |
57924,57924
57924 - Inhibitor of apoptosis (IAP) repeat
57924 - Inhibitor of apoptosis (IAP) repeat | 0 | Direct |
81324,53850
81324 - Voltage-gated potassium channels
53850 - Periplasmic binding protein-like II | 0 | Direct |
57196,49899
57196 - EGF/Laminin
49899 - Concanavalin A-like lectins/glucanases | 0 | Direct |
63712,90112
63712 - Nicotinic receptor ligand binding domain-like
90112 - Neurotransmitter-gated ion-channel transmembrane pore | 0.0004721 | Direct |
57184,52058
57184 - Growth factor receptor domain
52058 - L domain-like | 0.001283 | Inherited |
52058,57184
52058 - L domain-like
57184 - Growth factor receptor domain | 0.001283 | Inherited |
57440,50494
57440 - Kringle-like
50494 - Trypsin-like serine proteases | 0.005287 | Inherited |
54452,48726
54452 - MHC antigen-recognition domain
48726 - Immunoglobulin | 0.006271 | Inherited |
57535,57535
57535 - Complement control module/SCR domain
57535 - Complement control module/SCR domain | 0.02119 | Inherited |
53822,53850
53822 - Periplasmic binding protein-like I
53850 - Periplasmic binding protein-like II | 0.03962 | Inherited |
57424,57184
57424 - LDL receptor-like module
57184 - Growth factor receptor domain | 0.07768 | Inherited |
57184,63825
57184 - Growth factor receptor domain
63825 - YWTD domain | 0.07768 | Inherited |
90123,52540
90123 - ABC transporter transmembrane region
52540 - P-loop containing nucleoside triphosphate hydrolases | 0.08524 | Inherited |
47090,55486
47090 - PGBD-like
55486 - Metalloproteases ("zincins"), catalytic domain | 0.09743 | Inherited |
57424,57424
57424 - LDL receptor-like module
57424 - LDL receptor-like module | 0.1594 | Inherited |
49723,48484
49723 - Lipase/lipooxygenase domain (PLAT/LH2 domain)
48484 - Lipoxigenase | 0.1952 | Inherited |
49899,49899
49899 - Concanavalin A-like lectins/glucanases
49899 - Concanavalin A-like lectins/glucanases | 0.3073 | Inherited |
49265,49265
49265 - Fibronectin type III
49265 - Fibronectin type III | 0.3394 | Inherited |
48371,48371
48371 - ARM repeat
48371 - ARM repeat | 0.4437 | Inherited |
57586,57586
57586 - TNF receptor-like
57586 - TNF receptor-like | 0.6386 | Inherited |
48726,48726
48726 - Immunoglobulin
48726 - Immunoglobulin | 0.8887 | Inherited |
(show details)
Supra-domains annotated to this DO term (SPDO level: Least 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) |
57924,57924,57924
57924 - Inhibitor of apoptosis (IAP) repeat
57924 - Inhibitor of apoptosis (IAP) repeat
57924 - Inhibitor of apoptosis (IAP) repeat | 0 | DIRECT |
57196,57196,90193
57196 - EGF/Laminin
57196 - EGF/Laminin
90193 - Notch domain | 0 | DIRECT |
57440,57440,50494
57440 - Kringle-like
57440 - Kringle-like
50494 - Trypsin-like serine proteases | 0 | DIRECT |
57440,57440,57440
57440 - Kringle-like
57440 - Kringle-like
57440 - Kringle-like | 0 | DIRECT |
57414,57440,57440
57414 - Hairpin loop containing domain-like
57440 - Kringle-like
57440 - Kringle-like | 0 | DIRECT |
49899,57196,49899
49899 - Concanavalin A-like lectins/glucanases
57196 - EGF/Laminin
49899 - Concanavalin A-like lectins/glucanases | 0 | DIRECT |
50729,50156,50156
50729 - PH domain-like
50156 - PDZ domain-like
50156 - PDZ domain-like | 0 | DIRECT |
52058,57184,52058
52058 - L domain-like
57184 - Growth factor receptor domain
52058 - L domain-like | 0.001283 | INHERITED FROM: neuropathy |
57424,57184,63825
57424 - LDL receptor-like module
57184 - Growth factor receptor domain
63825 - YWTD domain | 0.01273 | INHERITED FROM: tauopathy || Alzheimer's disease |
57184,52058,57184
57184 - Growth factor receptor domain
52058 - L domain-like
57184 - Growth factor receptor domain | 0.01273 | INHERITED FROM: neuropathy || peripheral nervous system disease |
57424,57424,57184
57424 - LDL receptor-like module
57424 - LDL receptor-like module
57184 - Growth factor receptor domain | 0.01273 | INHERITED FROM: tauopathy || Alzheimer's disease |
57535,57535,57535
57535 - Complement control module/SCR domain
57535 - Complement control module/SCR domain
57535 - Complement control module/SCR domain | 0.08848 | INHERITED FROM: macular degeneration || retinal degeneration || eye disease || degeneration of macula and posterior pole || retinal disease |
57424,57424,57424
57424 - LDL receptor-like module
57424 - LDL receptor-like module
57424 - LDL receptor-like module | 0.2311 | INHERITED FROM: tauopathy || Alzheimer's disease |
| Supra-domain (Triple) in N- to C-terminal order |
FDR (all) |
Annotation (direct or inherited) |
57924,57924,57924
57924 - Inhibitor of apoptosis (IAP) repeat
57924 - Inhibitor of apoptosis (IAP) repeat
57924 - Inhibitor of apoptosis (IAP) repeat | 0 | Direct |
57196,57196,90193
57196 - EGF/Laminin
57196 - EGF/Laminin
90193 - Notch domain | 0 | Direct |
57440,57440,50494
57440 - Kringle-like
57440 - Kringle-like
50494 - Trypsin-like serine proteases | 0 | Direct |
57440,57440,57440
57440 - Kringle-like
57440 - Kringle-like
57440 - Kringle-like | 0 | Direct |
57414,57440,57440
57414 - Hairpin loop containing domain-like
57440 - Kringle-like
57440 - Kringle-like | 0 | Direct |
49899,57196,49899
49899 - Concanavalin A-like lectins/glucanases
57196 - EGF/Laminin
49899 - Concanavalin A-like lectins/glucanases | 0 | Direct |
50729,50156,50156
50729 - PH domain-like
50156 - PDZ domain-like
50156 - PDZ domain-like | 0 | Direct |
52058,57184,52058
52058 - L domain-like
57184 - Growth factor receptor domain
52058 - L domain-like | 0.001283 | Inherited |
57424,57184,63825
57424 - LDL receptor-like module
57184 - Growth factor receptor domain
63825 - YWTD domain | 0.01273 | Inherited |
57184,52058,57184
57184 - Growth factor receptor domain
52058 - L domain-like
57184 - Growth factor receptor domain | 0.01273 | Inherited |
57424,57424,57184
57424 - LDL receptor-like module
57424 - LDL receptor-like module
57184 - Growth factor receptor domain | 0.01273 | Inherited |
57535,57535,57535
57535 - Complement control module/SCR domain
57535 - Complement control module/SCR domain
57535 - Complement control module/SCR domain | 0.08848 | Inherited |
57424,57424,57424
57424 - LDL receptor-like module
57424 - LDL receptor-like module
57424 - LDL receptor-like module | 0.2311 | Inherited |
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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