Enzyme Commission (EC): Translocases

Biomedical Ontology
Like Gene Ontology (GO), biomedical ontology such as phenotype ontology classifies and organizes gene-mutant/null phenotypic information from the very general at the top to more specific terms in the directed acyclic graph (DAG) by viewing an individual term as a node and its relations to parental terms (allowing for multiple parents) as directed edges. To navigate this hierarchy, we display all parental phenotypic terms to the current phenotypic term of interest ordered by their shortest distances to the current term. Also, only direct children phenotypic terms of the current phenotypic term are listed. Biomedical ontologies we have incorporated are as follows:

Disease Ontology (DO) Ontology
DO semantically integrates disease and medical vocabularies through extensive cross mapping of DO terms to MeSH, ICD, NCI’s thesaurus, SNOMED and OMIM.
Human Phenotype (HP) Ontology
HP captures phenotypic abnormalities that are described in OMIM, along with the corresponding disease-causing genes. It includes three complementary biological concepts: Mode_of_Inheritance (MI), ONset_and_clinical_course (ON), and Phenotypic_Abnormality (PA).
Mouse Phenotype (MP) Ontology
MP describes phenotypes of the mouse after a specific gene is genetically disrupted. Using it, Mouse Genome Informatics (MGI) provides high-coverate gene-level phenotypes for the mouse.
Worm Phenotype (WP) Ontology
WP classifies and organizes phenotype descriptions for C. elegans and other nematodes. Using it, WormBase provides primary resource for phenotype annotations for C. elegans.
Yeast Phenotype (YP) Ontology
Based on YP which is the major contributor to the ‘Ascomycete phenotype ontology’, Saccharomyces Genome Database (SGD) provides single mutant phenotypes for every gene in the yeast genome.
Fly Phenotype (FP) Ontology
FP refers to FlyBase controlled vocabulary. Specifically, a structured controlled vocabulary is used for the annotation of alleles (for their mutagen etc) in FlyBase.
Fly Anatomy (FA) Ontology
FA is a structured controlled vocabulary of the anatomy of Drosophila melanogaster, used for the description of phenotypes and where a gene is expressed.
Zebrafish Anatomy (ZA) Ontology
ZA displays anatomical terms of the zebrafish using standard anatomical nomenclature, together with affected genes.
Xenopus Anatomy (XA) Ontology
XA represents the lineage of tissues and the timing of development for frogs (Xenopus laevis and Xenopus tropicalis). It is used to annotate Xenopus gene expression patterns and mutant and morphant phenotypes.
Arabidopsis Plant Ontology (AP) Ontology
As a major contributor to Plant Ontology which describes plant anatomical and morphological structures (AN) and growth and developmental stages (DE), the Arabidopsis Information Resource (TAIR) provides arabidopsis plant ontology annotations for the model higher plant Arabidopsis thaliana.
Enzyme Commission (EC) Ontology
Each enzyme is allocated a four-digit EC number, the first three digits of which define the reaction catalysed and the fourth of which is a unique identifier (serial number). Each enzyme is also assigned a systematic name that uniquely defines the reaction catalysed.
UniProtKB KeyWords (KW) Ontology
Keywords in UniProtKB are controlled vocabulary, providing a summary of the entry content and are used to index UniProtKB/Swiss-Prot entries based on 10 categories (the category "Technical term" being excluded here). Each keyword is attributed manually to UniProtKB/Swiss-Prot entries and automatically to UniProtKB/TrEMBL entries (according to specific annotation rules).
CTD Diseases (CD) Ontology
CD is MEDIC disease vocabulary that is modified by CTD from the "Diseases" [C] branch of Medical Subject Headings (MeSH), combined with genetic disorders from the Online Mendelian Inheritance in OMIM database.
CTD Chemicals (CC) Ontology
CC is chemical vocabulary that is adapted by CTD from the "Chemicals and Drugs" category and Supplementary Concept Records of Medical Subject Headings (MeSH, a hierarchical vocabulary used to index articles for MEDLINE/PubMed).

Superfamily

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Superfamily

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SCOP term	FDR (all)	Annotation (direct or inherited)
Transmembrane di-heme cytochromes	0	Direct
Nqo1 middle domain-like	0	Direct
4Fe-4S ferredoxins	0	Direct
C-terminal domain of alpha and beta subunits of F1 ATP synthase	0	Direct
N-terminal domain of alpha and beta subunits of F1 ATP synthase	0	Direct
HydB/Nqo4-like	0	Direct
HMA, heavy metal-associated domain	0	Direct
Calcium ATPase, transduction domain A	0	Direct
Non-globular alpha+beta subunits of globular proteins	0	Direct
Calcium ATPase, transmembrane domain M	0	Direct
HAD-like	0	Direct
ACT-like	0	Direct
MOP-like	0	Direct
ABC transporter transmembrane region	0	Direct
Nqo5-like	0	Direct
Nqo1 FMN-binding domain-like	0	Direct
Nqo1C-terminal domain-like	0	Direct
Riboflavin synthase domain-like	0	Direct
2Fe-2S ferredoxin-like	0	Direct
Ferredoxin reductase-like, C-terminal NADP-linked domain	0	Direct
Metal cation-transporting ATPase, ATP-binding domain N	0	Direct
ISP domain	0	Direct
P-loop containing nucleoside triphosphate hydrolases	0	Direct
Helical scaffold and wing domains of SecA	0	Direct
Pre-protein crosslinking domain of SecA	0	Direct
ISP transmembrane anchor	0	Direct
HydA/Nqo6-like	0.00000000000001778	Direct
Formate dehydrogenase/DMSO reductase, domains 1-3	0.00000009816	Direct
Hedgehog/intein (Hint) domain	0.0002493	Direct
Cytochrome c	0.0008732	Direct
Homing endonucleases	0.0009816	Direct
Single hybrid motif	0.0431	Inherited
CBS-domain pair	0.06137	Inherited
SCOP hierarchy in SUPERFAMILY	0.2148	Inherited
Cytochrome c oxidase subunit I-like	0.297	Inherited
Formate/glycerate dehydrogenase catalytic domain-like	0.8401	Inherited
DHS-like NAD/FAD-binding domain	0.9355	Inherited
post-HMGL domain-like	0.9583	Inherited
Thioredoxin-like	1	Inherited
Aldolase	1	Inherited
NAD(P)-binding Rossmann-fold domains	1	Inherited

LINKTO: Domain2BO Download and Domain2BO Algorithm

Family

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Family

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SCOP term	FDR (all)	Annotation (direct or inherited)
Pre-protein crosslinking domain of SecA	0	Direct
ABC transporter transmembrane region	0	Direct
Nqo5-like	0	Direct
Ubiquinol-cytochrome c reductase 8 kDa protein	0	Direct
Metal cation-transporting ATPase, ATP-binding domain N	0	Direct
Nqo1 FMN-binding domain-like	0	Direct
Nqo4-like	0	Direct
Rieske iron-sulfur protein (ISP)	0	Direct
Ferredoxin reductase FAD-binding domain-like	0	Direct
Nqo1 middle domain-like	0	Direct
ISP transmembrane anchor	0	Direct
Calcium ATPase, transduction domain A	0	Direct
RecA protein-like (ATPase-domain)	0	Direct
Ferredoxin domains from multidomain proteins	0	Direct
Meta-cation ATPase, catalytic domain P	0	Direct
ABC-transporter additional domain	0	Direct
C-terminal domain of alpha and beta subunits of F1 ATP synthase	0	Direct
Nqo1C-terminal domain-like	0	Direct
ABC transporter ATPase domain-like	0	Direct
Calcium ATPase, transmembrane domain M	0	Direct
NQO2-like	0	Direct
Nq06-like	0	Direct
HMA, heavy metal-associated domain	0	Direct
N-terminal domain of alpha and beta subunits of F1 ATP synthase	0	Direct
Cytochrome b of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase)	0	Direct
Helical scaffold and wing domains of SecA	0	Direct
NIL domain-like	0	Direct
Transhydrogenase domain III (dIII)	0.0000000000002559	Direct
L-alanine dehydrogenase-like	0.0000003103	Direct
Formate dehydrogenase/DMSO reductase, domains 1-3	0.000001079	Direct
Conserved carboxylase domain	0.002482	Inherited
Intein (protein splicing domain)	0.006085	Inherited
Biotinyl/lipoyl-carrier proteins and domains	0.05203	Inherited
CBS-domain pair	0.06254	Inherited
Cytochrome c oxidase subunit I-like	0.344	Inherited
2Fe-2S ferredoxin domains from multidomain proteins	0.3988	Inherited
Formate/glycerate dehydrogenases, NAD-domain	0.9132	Inherited
Tandem AAA-ATPase domain	1	Inherited
HMGL-like	1	Inherited
Nitrogenase iron protein-like	1	Inherited

LINKTO: Domain2BO Download and Domain2BO Algorithm

Supra-domain (Single|Duplex|Triple)

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Supra-domain (Single)

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Supra-domain (Single)	FDR (all)	Annotation (direct or inherited)
Pre-protein crosslinking domain of SecA	0	Direct
Riboflavin synthase domain-like	0	Direct
Transmembrane di-heme cytochromes	0	Direct
MOP-like	0	Direct
Nqo5-like	0	Direct
Calcium ATPase, transmembrane domain M	0	Direct
Calcium ATPase, transduction domain A	0	Direct
ISP transmembrane anchor	0	Direct
Helical scaffold and wing domains of SecA	0	Direct
HydB/Nqo4-like	0	Direct
Nqo1 middle domain-like	0	Direct
C-terminal domain of alpha and beta subunits of F1 ATP synthase	0	Direct
Nqo1 FMN-binding domain-like	0	Direct
ISP domain	0	Direct
HMA, heavy metal-associated domain	0	Direct
Metal cation-transporting ATPase, ATP-binding domain N	0	Direct
ACT-like	0	Direct
HAD-like	0	Direct
P-loop containing nucleoside triphosphate hydrolases	0	Direct
Non-globular alpha+beta subunits of globular proteins	0	Direct
4Fe-4S ferredoxins	0	Direct
N-terminal domain of alpha and beta subunits of F1 ATP synthase	0	Direct
Nqo1C-terminal domain-like	0	Direct
ABC transporter transmembrane region	0	Direct
Ferredoxin reductase-like, C-terminal NADP-linked domain	0	Direct
2Fe-2S ferredoxin-like	0	Direct
HydA/Nqo6-like	0.00000000000001253	Direct
Formate dehydrogenase/DMSO reductase, domains 1-3	0.00000007495	Direct
Hedgehog/intein (Hint) domain	0.0002026	Direct
Cytochrome c	0.000719	Direct
Homing endonucleases	0.0008091	Direct
Single hybrid motif	0.03709	Inherited
CBS-domain pair	0.05319	Inherited
Cytochrome c oxidase subunit I-like	0.2678	Inherited
Formate/glycerate dehydrogenase catalytic domain-like	0.7742	Inherited
DHS-like NAD/FAD-binding domain	0.8647	Inherited
post-HMGL domain-like	0.8865	Inherited
Aldolase	1	Inherited
Thioredoxin-like	1	Inherited
NAD(P)-binding Rossmann-fold domains	1	Inherited

LINKTO: Supra-domain2BO Download and Supra-domain2BO Algorithm

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Supra-domain (Duplex) in N- to C-terminal order

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Supra-domain (Duplex) in N- to C-terminal order	FDR (all)	Annotation (direct or inherited)
81660,56784 81660 - Metal cation-transporting ATPase, ATP-binding domain N 56784 - HAD-like	0	Direct
52540,90123 52540 - P-loop containing nucleoside triphosphate hydrolases 90123 - ABC transporter transmembrane region	0	Direct
54862,53706 54862 - 4Fe-4S ferredoxins 53706 - Formate dehydrogenase/DMSO reductase, domains 1-3	0	Direct
52540,81767 52540 - P-loop containing nucleoside triphosphate hydrolases 81767 - Pre-protein crosslinking domain of SecA	0	Direct
54292,54862 54292 - 2Fe-2S ferredoxin-like 54862 - 4Fe-4S ferredoxins	0	Direct
81502,50022 81502 - ISP transmembrane anchor 50022 - ISP domain	0	Direct
142984,140490 142984 - Nqo1 middle domain-like 140490 - Nqo1C-terminal domain-like	0	Direct
50331,50331 50331 - MOP-like 50331 - MOP-like	0	Direct
52540,54631 52540 - P-loop containing nucleoside triphosphate hydrolases 54631 - CBS-domain pair	0	Direct
142019,142984 142019 - Nqo1 FMN-binding domain-like 142984 - Nqo1 middle domain-like	0	Direct
52540,53850 52540 - P-loop containing nucleoside triphosphate hydrolases 53850 - Periplasmic binding protein-like II	0	Direct
81665,81660 81665 - Calcium ATPase, transmembrane domain M 81660 - Metal cation-transporting ATPase, ATP-binding domain N	0	Direct
52540,50331 52540 - P-loop containing nucleoside triphosphate hydrolases 50331 - MOP-like	0	Direct
52540,81886 52540 - P-loop containing nucleoside triphosphate hydrolases 81886 - Helical scaffold and wing domains of SecA	0	Direct
90123,52540 90123 - ABC transporter transmembrane region 52540 - P-loop containing nucleoside triphosphate hydrolases	0	Direct
-7,50022 -7 - CATH 50022 - ISP domain	0	Direct
52540,52540 52540 - P-loop containing nucleoside triphosphate hydrolases 52540 - P-loop containing nucleoside triphosphate hydrolases	0	Direct
52540,55021 52540 - P-loop containing nucleoside triphosphate hydrolases 55021 - ACT-like	0	Direct
52540,47917 52540 - P-loop containing nucleoside triphosphate hydrolases 47917 - C-terminal domain of alpha and beta subunits of F1 ATP synthase	0	Direct
50615,52540 50615 - N-terminal domain of alpha and beta subunits of F1 ATP synthase 52540 - P-loop containing nucleoside triphosphate hydrolases	0	Direct
56784,81665 56784 - HAD-like 81665 - Calcium ATPase, transmembrane domain M	0	Direct
63380,52343 63380 - Riboflavin synthase domain-like 52343 - Ferredoxin reductase-like, C-terminal NADP-linked domain	0	Direct
56568,81502 56568 - Non-globular alpha+beta subunits of globular proteins 81502 - ISP transmembrane anchor	0	Direct
54292,63380 54292 - 2Fe-2S ferredoxin-like 63380 - Riboflavin synthase domain-like	0	Direct
55008,55008 55008 - HMA, heavy metal-associated domain 55008 - HMA, heavy metal-associated domain	0	Direct
81653,81665 81653 - Calcium ATPase, transduction domain A 81665 - Calcium ATPase, transmembrane domain M	0	Direct
81665,56784 81665 - Calcium ATPase, transmembrane domain M 56784 - HAD-like	0	Direct
56784,81660 56784 - HAD-like 81660 - Metal cation-transporting ATPase, ATP-binding domain N	0	Direct
52540,51294 52540 - P-loop containing nucleoside triphosphate hydrolases 51294 - Hedgehog/intein (Hint) domain	0.000000004245	Direct
55608,52540 55608 - Homing endonucleases 52540 - P-loop containing nucleoside triphosphate hydrolases	0.000000005942	Direct
51294,55608 51294 - Hedgehog/intein (Hint) domain 55608 - Homing endonucleases	0.000006001	Direct
46626,46626 46626 - Cytochrome c 46626 - Cytochrome c	0.00003882	Direct
52283,51735 52283 - Formate/glycerate dehydrogenase catalytic domain-like 51735 - NAD(P)-binding Rossmann-fold domains	0.76	Inherited
51569,89000 51569 - Aldolase 89000 - post-HMGL domain-like	0.8865	Inherited

LINKTO: Supra-domain2BO Download and Supra-domain2BO Algorithm

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Supra-domain (Triple) in N- to C-terminal order

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Supra-domain (Triple) in N- to C-terminal order	FDR (all)	Annotation (direct or inherited)
81653,81665,81660 81653 - Calcium ATPase, transduction domain A 81665 - Calcium ATPase, transmembrane domain M 81660 - Metal cation-transporting ATPase, ATP-binding domain N	0	Direct
55608,52540,47917 55608 - Homing endonucleases 52540 - P-loop containing nucleoside triphosphate hydrolases 47917 - C-terminal domain of alpha and beta subunits of F1 ATP synthase	0	Direct
81665,81660,56784 81665 - Calcium ATPase, transmembrane domain M 81660 - Metal cation-transporting ATPase, ATP-binding domain N 56784 - HAD-like	0	Direct
55008,55008,55008 55008 - HMA, heavy metal-associated domain 55008 - HMA, heavy metal-associated domain 55008 - HMA, heavy metal-associated domain	0	Direct
56568,81502,50022 56568 - Non-globular alpha+beta subunits of globular proteins 81502 - ISP transmembrane anchor 50022 - ISP domain	0	Direct
90123,52540,90123 90123 - ABC transporter transmembrane region 52540 - P-loop containing nucleoside triphosphate hydrolases 90123 - ABC transporter transmembrane region	0	Direct
54292,54862,53706 54292 - 2Fe-2S ferredoxin-like 54862 - 4Fe-4S ferredoxins 53706 - Formate dehydrogenase/DMSO reductase, domains 1-3	0	Direct
56784,81660,56784 56784 - HAD-like 81660 - Metal cation-transporting ATPase, ATP-binding domain N 56784 - HAD-like	0	Direct
52540,90123,52540 52540 - P-loop containing nucleoside triphosphate hydrolases 90123 - ABC transporter transmembrane region 52540 - P-loop containing nucleoside triphosphate hydrolases	0	Direct
52540,50331,50331 52540 - P-loop containing nucleoside triphosphate hydrolases 50331 - MOP-like 50331 - MOP-like	0	Direct
52540,52540,47917 52540 - P-loop containing nucleoside triphosphate hydrolases 52540 - P-loop containing nucleoside triphosphate hydrolases 47917 - C-terminal domain of alpha and beta subunits of F1 ATP synthase	0	Direct
50615,52540,47917 50615 - N-terminal domain of alpha and beta subunits of F1 ATP synthase 52540 - P-loop containing nucleoside triphosphate hydrolases 47917 - C-terminal domain of alpha and beta subunits of F1 ATP synthase	0	Direct
81653,81665,56784 81653 - Calcium ATPase, transduction domain A 81665 - Calcium ATPase, transmembrane domain M 56784 - HAD-like	0	Direct
54292,63380,52343 54292 - 2Fe-2S ferredoxin-like 63380 - Riboflavin synthase domain-like 52343 - Ferredoxin reductase-like, C-terminal NADP-linked domain	0	Direct
81660,56784,81665 81660 - Metal cation-transporting ATPase, ATP-binding domain N 56784 - HAD-like 81665 - Calcium ATPase, transmembrane domain M	0	Direct
142019,142984,140490 142019 - Nqo1 FMN-binding domain-like 142984 - Nqo1 middle domain-like 140490 - Nqo1C-terminal domain-like	0	Direct
50615,52540,52540 50615 - N-terminal domain of alpha and beta subunits of F1 ATP synthase 52540 - P-loop containing nucleoside triphosphate hydrolases 52540 - P-loop containing nucleoside triphosphate hydrolases	0	Direct
52540,51294,55608 52540 - P-loop containing nucleoside triphosphate hydrolases 51294 - Hedgehog/intein (Hint) domain 55608 - Homing endonucleases	0.00000008965	Direct
51294,55608,52540 51294 - Hedgehog/intein (Hint) domain 55608 - Homing endonucleases 52540 - P-loop containing nucleoside triphosphate hydrolases	0.000001891	Direct