UniProtKB - P08200 (IDH_ECOLI)
Protein
Isocitrate dehydrogenase [NADP]
Gene
icd
Organism
Escherichia coli (strain K12)
Status
Functioni
Catalytic activityi
- EC:1.1.1.424 Publications
Cofactori
Activity regulationi
Inhibition of this enzyme by phosphorylation regulates the branch point between the Krebs cycle and the glyoxylate bypass, which is an alternate route that accumulates carbon for biosynthesis when acetate is the sole carbon source for growth.1 Publication
Kineticsi
- KM=11.4 µM for isocitrate1 Publication
- KM=13 µM for isocitrate1 Publication
Sites
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Binding sitei | 104 | NADPCombined sources3 Publications | 1 | |
Binding sitei | 113 | SubstrateCombined sources2 Publications | 1 | |
Binding sitei | 115 | SubstrateCombined sources2 Publications | 1 | |
Binding sitei | 119 | SubstrateCombined sources2 Publications | 1 | |
Binding sitei | 129 | SubstrateCombined sources2 Publications | 1 | |
Binding sitei | 153 | SubstrateCombined sources2 Publications | 1 | |
Sitei | 160 | Critical for catalysis2 Publications | 1 | |
Sitei | 230 | Critical for catalysis2 Publications | 1 | |
Metal bindingi | 307 | Magnesium or manganeseCombined sources3 Publications | 1 | |
Binding sitei | 352 | NADP; via amide nitrogen and carbonyl oxygenCombined sources3 Publications | 1 | |
Binding sitei | 391 | NADPCombined sources3 Publications | 1 | |
Binding sitei | 395 | NADPCombined sources3 Publications | 1 |
Regions
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Nucleotide bindingi | 339 – 345 | NADPCombined sources3 Publications | 7 |
GO - Molecular functioni
- isocitrate dehydrogenase (NADP+) activity Source: UniProtKB
- magnesium ion binding Source: InterPro
- NAD binding Source: InterPro
GO - Biological processi
- electron transport chain Source: EcoliWiki
- glyoxylate cycle Source: UniProtKB-KW
- response to oxidative stress Source: EcoCyc
- tricarboxylic acid cycle Source: EcoliWiki
Keywordsi
Molecular function | Oxidoreductase |
Biological process | Glyoxylate bypass, Tricarboxylic acid cycle |
Ligand | Magnesium, Manganese, Metal-binding, NADP |
Enzyme and pathway databases
BioCyci | EcoCyc:ISOCITDEH-SUBUNIT MetaCyc:ISOCITDEH-SUBUNIT |
BRENDAi | 1.1.1.42, 2026 |
SABIO-RKi | P08200 |
Names & Taxonomyi
Protein namesi | Recommended name: Isocitrate dehydrogenase [NADP] (EC:1.1.1.424 Publications)Short name: IDH Alternative name(s): IDP NADP(+)-specific ICDH Oxalosuccinate decarboxylase |
Gene namesi | Name:icd Synonyms:icdA, icdE Ordered Locus Names:b1136, JW1122 |
Organismi | Escherichia coli (strain K12) |
Taxonomic identifieri | 83333 [NCBI] |
Taxonomic lineagei | Bacteria › Proteobacteria › Gammaproteobacteria › Enterobacterales › Enterobacteriaceae › Escherichia › |
Proteomesi |
|
Subcellular locationi
Pathology & Biotechi
Mutagenesis
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Mutagenesisi | 100 | K → R or E: Abolishes enzymatic activity. 1 Publication | 1 | |
Mutagenesisi | 113 | S → A or T: Decreased enzyme activity. Loss of phosphorylation. 1 Publication | 1 | |
Mutagenesisi | 113 | S → D or E: Reduced affinity for isocitrate. 1 Publication | 1 | |
Mutagenesisi | 113 | S → D: Loss of enzyme activity. 1 Publication | 1 | |
Mutagenesisi | 160 | Y → F: Nearly abolishes enzyme activity. No significant effect on substrate affinity. 2 Publications | 1 | |
Mutagenesisi | 230 | K → M: Nearly abolishes enzyme activity and strongly reduces substrate affinity. 2 Publications | 1 | |
Mutagenesisi | 242 | K → E: Strongly impairs enzymatic activity. 1 Publication | 1 | |
Mutagenesisi | 242 | K → R: Impairs enzymatic activity. 1 Publication | 1 |
Chemistry databases
DrugBanki | DB02190, (S)-oxalosuccinic acid DB04279, 3-Isopropylmalic Acid DB01727, Isocitric Acid DB03461, Nicotinamide adenine dinucleotide phosphate |
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000083551 | 1 – 416 | Isocitrate dehydrogenase [NADP]Add BLAST | 416 |
Amino acid modifications
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Modified residuei | 100 | N6-succinyllysine1 Publication | 1 | |
Modified residuei | 113 | Phosphoserine2 Publications | 1 | |
Modified residuei | 142 | N6-acetyllysine1 Publication | 1 | |
Modified residuei | 242 | N6-succinyllysine1 Publication | 1 |
Post-translational modificationi
Phosphorylation state of this enzyme is controlled by isocitrate dehydrogenase kinase/phosphatase (AceK).1 Publication
Succinylation probably inhibits enzymatic activity.1 Publication
Keywords - PTMi
Acetylation, PhosphoproteinProteomic databases
jPOSTi | P08200 |
PaxDbi | P08200 |
PRIDEi | P08200 |
2D gel databases
SWISS-2DPAGEi | P08200 |
PTM databases
iPTMneti | P08200 |
Interactioni
Subunit structurei
Homodimer.
4 PublicationsBinary interactionsi
P08200
With | #Exp. | IntAct |
---|---|---|
aceK [P11071] | 5 | EBI-369069,EBI-1112800 |
Protein-protein interaction databases
BioGRIDi | 4263056, 28 interactors 850074, 1 interactor |
DIPi | DIP-10006N |
IntActi | P08200, 6 interactors |
STRINGi | 511145.b1136 |
Structurei
Secondary structure
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details3D structure databases
SMRi | P08200 |
ModBasei | Search... |
PDBe-KBi | Search... |
Miscellaneous databases
EvolutionaryTracei | P08200 |
Family & Domainsi
Sequence similaritiesi
Belongs to the isocitrate and isopropylmalate dehydrogenases family.Curated
Phylogenomic databases
eggNOGi | COG0538, Bacteria |
HOGENOMi | CLU_031953_7_1_6 |
InParanoidi | P08200 |
PhylomeDBi | P08200 |
Family and domain databases
InterProi | View protein in InterPro IPR019818, IsoCit/isopropylmalate_DH_CS IPR004439, Isocitrate_DH_NADP_dimer_prok IPR024084, IsoPropMal-DH-like_dom |
PANTHERi | PTHR43504, PTHR43504, 1 hit |
Pfami | View protein in Pfam PF00180, Iso_dh, 1 hit |
SMARTi | View protein in SMART SM01329, Iso_dh, 1 hit |
TIGRFAMsi | TIGR00183, prok_nadp_idh, 1 hit |
PROSITEi | View protein in PROSITE PS00470, IDH_IMDH, 1 hit |
i Sequence
Sequence statusi: Complete.
P08200-1 [UniParc]FASTAAdd to basket
10 20 30 40 50
MESKVVVPAQ GKKITLQNGK LNVPENPIIP YIEGDGIGVD VTPAMLKVVD
60 70 80 90 100
AAVEKAYKGE RKISWMEIYT GEKSTQVYGQ DVWLPAETLD LIREYRVAIK
110 120 130 140 150
GPLTTPVGGG IRSLNVALRQ ELDLYICLRP VRYYQGTPSP VKHPELTDMV
160 170 180 190 200
IFRENSEDIY AGIEWKADSA DAEKVIKFLR EEMGVKKIRF PEHCGIGIKP
210 220 230 240 250
CSEEGTKRLV RAAIEYAIAN DRDSVTLVHK GNIMKFTEGA FKDWGYQLAR
260 270 280 290 300
EEFGGELIDG GPWLKVKNPN TGKEIVIKDV IADAFLQQIL LRPAEYDVIA
310 320 330 340 350
CMNLNGDYIS DALAAQVGGI GIAPGANIGD ECALFEATHG TAPKYAGQDK
360 370 380 390 400
VNPGSIILSA EMMLRHMGWT EAADLIVKGM EGAINAKTVT YDFERLMDGA
410
KLLKCSEFGD AIIENM
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | J02799 Genomic DNA Translation: AAA24006.1 U00096 Genomic DNA Translation: AAC74220.1 AP009048 Genomic DNA Translation: BAA35958.1 AF017587 Genomic DNA Translation: AAC45887.1 |
PIRi | A28482, DCECIS |
RefSeqi | NP_415654.1, NC_000913.3 WP_000444484.1, NZ_CP047127.1 |
Genome annotation databases
EnsemblBacteriai | AAC74220; AAC74220; b1136 BAA35958; BAA35958; BAA35958 |
GeneIDi | 945702 |
KEGGi | ecj:JW1122 eco:b1136 |
PATRICi | fig|511145.12.peg.1183 |
Similar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | J02799 Genomic DNA Translation: AAA24006.1 U00096 Genomic DNA Translation: AAC74220.1 AP009048 Genomic DNA Translation: BAA35958.1 AF017587 Genomic DNA Translation: AAC45887.1 |
PIRi | A28482, DCECIS |
RefSeqi | NP_415654.1, NC_000913.3 WP_000444484.1, NZ_CP047127.1 |
3D structure databases
Select the link destinations: PDBei RCSB PDBi PDBji Links Updated | PDB entry | Method | Resolution (Å) | Chain | Positions | PDBsum |
1AI2 | X-ray | 1.90 | A | 1-416 | [»] | |
1AI3 | X-ray | 1.90 | A | 1-416 | [»] | |
1BL5 | X-ray | 2.50 | A | 3-416 | [»] | |
1CW1 | X-ray | 2.10 | A | 1-416 | [»] | |
1CW4 | X-ray | 2.10 | A | 1-416 | [»] | |
1CW7 | X-ray | 2.60 | A | 1-416 | [»] | |
1GRO | X-ray | 2.50 | A | 1-416 | [»] | |
1GRP | X-ray | 2.50 | A | 1-416 | [»] | |
1HJ6 | X-ray | 2.00 | A | 1-416 | [»] | |
1IDC | X-ray | 2.50 | A | 1-416 | [»] | |
1IDD | X-ray | 2.50 | A | 1-416 | [»] | |
1IDE | X-ray | 2.50 | A | 1-416 | [»] | |
1IDF | X-ray | 2.50 | A | 1-416 | [»] | |
1IKA | X-ray | 2.70 | A | 1-416 | [»] | |
1ISO | X-ray | 1.90 | A | 1-416 | [»] | |
1P8F | X-ray | 1.85 | A | 1-416 | [»] | |
1PB1 | X-ray | 1.70 | A | 1-416 | [»] | |
1PB3 | X-ray | 1.70 | A | 1-416 | [»] | |
1SJS | X-ray | 2.42 | A | 1-416 | [»] | |
3ICD | X-ray | 2.50 | A | 1-416 | [»] | |
3LCB | X-ray | 2.90 | C/D | 1-416 | [»] | |
4AJ3 | X-ray | 1.90 | A | 1-416 | [»] | |
4AJA | X-ray | 1.80 | A | 1-416 | [»] | |
4AJB | X-ray | 1.90 | A | 1-416 | [»] | |
4AJC | X-ray | 2.30 | A | 1-416 | [»] | |
4AJR | X-ray | 2.69 | A | 1-416 | [»] | |
4AJS | X-ray | 1.80 | A | 1-416 | [»] | |
4BNP | X-ray | 2.00 | A | 1-416 | [»] | |
4ICD | X-ray | 2.50 | A | 1-416 | [»] | |
4P69 | X-ray | 3.30 | C/D | 2-416 | [»] | |
5ICD | X-ray | 2.50 | A | 1-416 | [»] | |
6ICD | X-ray | 2.80 | A | 1-416 | [»] | |
7ICD | X-ray | 2.40 | A | 1-416 | [»] | |
8ICD | X-ray | 2.50 | A | 1-416 | [»] | |
9ICD | X-ray | 2.50 | A | 1-416 | [»] | |
SMRi | P08200 | |||||
ModBasei | Search... | |||||
PDBe-KBi | Search... |
Protein-protein interaction databases
BioGRIDi | 4263056, 28 interactors 850074, 1 interactor |
DIPi | DIP-10006N |
IntActi | P08200, 6 interactors |
STRINGi | 511145.b1136 |
Chemistry databases
DrugBanki | DB02190, (S)-oxalosuccinic acid DB04279, 3-Isopropylmalic Acid DB01727, Isocitric Acid DB03461, Nicotinamide adenine dinucleotide phosphate |
PTM databases
iPTMneti | P08200 |
2D gel databases
SWISS-2DPAGEi | P08200 |
Proteomic databases
jPOSTi | P08200 |
PaxDbi | P08200 |
PRIDEi | P08200 |
Genome annotation databases
EnsemblBacteriai | AAC74220; AAC74220; b1136 BAA35958; BAA35958; BAA35958 |
GeneIDi | 945702 |
KEGGi | ecj:JW1122 eco:b1136 |
PATRICi | fig|511145.12.peg.1183 |
Organism-specific databases
EchoBASEi | EB0484 |
Phylogenomic databases
eggNOGi | COG0538, Bacteria |
HOGENOMi | CLU_031953_7_1_6 |
InParanoidi | P08200 |
PhylomeDBi | P08200 |
Enzyme and pathway databases
BioCyci | EcoCyc:ISOCITDEH-SUBUNIT MetaCyc:ISOCITDEH-SUBUNIT |
BRENDAi | 1.1.1.42, 2026 |
SABIO-RKi | P08200 |
Miscellaneous databases
EvolutionaryTracei | P08200 |
PROi | PR:P08200 |
Family and domain databases
InterProi | View protein in InterPro IPR019818, IsoCit/isopropylmalate_DH_CS IPR004439, Isocitrate_DH_NADP_dimer_prok IPR024084, IsoPropMal-DH-like_dom |
PANTHERi | PTHR43504, PTHR43504, 1 hit |
Pfami | View protein in Pfam PF00180, Iso_dh, 1 hit |
SMARTi | View protein in SMART SM01329, Iso_dh, 1 hit |
TIGRFAMsi | TIGR00183, prok_nadp_idh, 1 hit |
PROSITEi | View protein in PROSITE PS00470, IDH_IMDH, 1 hit |
ProtoNeti | Search... |
MobiDBi | Search... |
Entry informationi
Entry namei | IDH_ECOLI | |
Accessioni | P08200Primary (citable) accession number: P08200 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | August 1, 1988 |
Last sequence update: | August 1, 1988 | |
Last modified: | April 7, 2021 | |
This is version 186 of the entry and version 1 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Prokaryotic Protein Annotation Program |
Miscellaneousi
Keywords - Technical termi
3D-structure, Direct protein sequencing, Reference proteomeDocuments
- PDB cross-references
Index of Protein Data Bank (PDB) cross-references - SIMILARITY comments
Index of protein domains and families