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P50216

- IDH_CORGL

UniProt

P50216 - IDH_CORGL

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Protein
Isocitrate dehydrogenase [NADP]
Gene
icd, Cgl0664, cg0766
Organism
Corynebacterium glutamicum (strain ATCC 13032 / DSM 20300 / JCM 1318 / LMG 3730 / NCIMB 10025)
Status
Reviewed - Annotation score: 4 out of 5 - Experimental evidence at protein leveli

Functioni

Catalytic activityi

Isocitrate + NADP+ = 2-oxoglutarate + CO2 + NADPH.

Cofactori

Binds 1 magnesium or manganese ion per subunit.

Enzyme regulationi

Weakly inhibited by oxaloacetate, 2-oxoglutarate, and citrate. Severely inhibited by oxaloacetate plus glyoxylate.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei133 – 1331NADP By similarity
Binding sitei143 – 1431Substrate By similarity
Sitei253 – 2531Critical for catalysis By similarity
Metal bindingi346 – 3461Magnesium or manganese
Sitei416 – 4161Critical for catalysis By similarity
Binding sitei543 – 5431Substrate By similarity
Metal bindingi544 – 5441Magnesium or manganese
Metal bindingi548 – 5481Magnesium or manganese
Binding sitei585 – 5851NADP By similarity
Binding sitei645 – 6451NADP By similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi80 – 856NADP By similarity
Nucleotide bindingi580 – 5812NADP By similarity
Nucleotide bindingi596 – 5983NADP By similarity

GO - Molecular functioni

  1. isocitrate dehydrogenase (NADP+) activity Source: UniProtKB-EC
  2. metal ion binding Source: UniProtKB-KW

GO - Biological processi

  1. glyoxylate cycle Source: UniProtKB-KW
  2. tricarboxylic acid cycle Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Biological processi

Glyoxylate bypass, Tricarboxylic acid cycle

Keywords - Ligandi

Magnesium, Metal-binding, NADP

Names & Taxonomyi

Protein namesi
Recommended name:
Isocitrate dehydrogenase [NADP] (EC:1.1.1.42)
Short name:
IDH
Alternative name(s):
Oxalosuccinate decarboxylase
Gene namesi
Name:icd
Ordered Locus Names:Cgl0664, cg0766
OrganismiCorynebacterium glutamicum (strain ATCC 13032 / DSM 20300 / JCM 1318 / LMG 3730 / NCIMB 10025)
Taxonomic identifieri196627 [NCBI]
Taxonomic lineageiBacteriaActinobacteriaActinobacteridaeActinomycetalesCorynebacterineaeCorynebacteriaceaeCorynebacterium
ProteomesiUP000000582: Chromosome, UP000001009: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 738738Isocitrate dehydrogenase [NADP]
PRO_0000083595Add
BLAST

Keywords - PTMi

Phosphoprotein

Interactioni

Subunit structurei

Monomer.1 Publication

Protein-protein interaction databases

STRINGi196627.cg0766.

Structurei

Secondary structure

Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi3 – 86
Helixi11 – 2919
Turni30 – 323
Beta strandi34 – 396
Helixi42 – 476
Helixi51 – 533
Turni56 – 583
Helixi63 – 708
Beta strandi77 – 804
Helixi88 – 10013
Helixi115 – 12511
Beta strandi128 – 1303
Helixi132 – 1365
Beta strandi141 – 1444
Helixi147 – 1559
Beta strandi170 – 1723
Beta strandi175 – 1784
Helixi179 – 1824
Beta strandi184 – 1874
Beta strandi192 – 1998
Beta strandi205 – 21410
Beta strandi219 – 2257
Helixi227 – 24418
Beta strandi247 – 2504
Turni254 – 2563
Helixi260 – 27213
Helixi274 – 28613
Helixi294 – 3029
Helixi308 – 32114
Beta strandi327 – 3293
Helixi330 – 3323
Beta strandi342 – 3443
Helixi345 – 35410
Turni355 – 3573
Beta strandi358 – 3603
Beta strandi366 – 3727
Helixi376 – 39217
Turni397 – 3993
Beta strandi405 – 4073
Turni410 – 4123
Helixi414 – 4174
Helixi419 – 4213
Beta strandi422 – 4243
Beta strandi427 – 4348
Beta strandi440 – 4467
Beta strandi451 – 4577
Helixi459 – 47618
Beta strandi480 – 4834
Helixi489 – 50214
Beta strandi512 – 5154
Helixi517 – 52913
Beta strandi535 – 5384
Helixi540 – 55516
Beta strandi558 – 5603
Beta strandi562 – 5676
Beta strandi572 – 5754
Helixi583 – 59210
Helixi600 – 61718
Helixi620 – 63819
Helixi652 – 66918
Helixi674 – 70027
Beta strandi711 – 7133
Helixi716 – 7238
Helixi727 – 7359

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2B0TX-ray1.75A1-738[»]
3MBCX-ray1.90A/B1-738[»]
ProteinModelPortaliP50216.
SMRiP50216. Positions 2-736.

Miscellaneous databases

EvolutionaryTraceiP50216.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni130 – 1378Substrate binding By similarity

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG2838.
HOGENOMiHOG000240860.
KOiK00031.
OMAiQVQEENH.
OrthoDBiEOG6DVJPP.

Family and domain databases

Gene3Di3.40.718.10. 3 hits.
InterProiIPR004436. Isocitrate_DH_NADP_mono.
IPR024084. IsoPropMal-DH-like_dom.
[Graphical view]
PfamiPF03971. IDH. 1 hit.
[Graphical view]
PIRSFiPIRSF009407. IDH_monmr. 1 hit.
TIGRFAMsiTIGR00178. monomer_idh. 1 hit.

Sequencei

Sequence statusi: Complete.

P50216-1 [UniParc]FASTAAdd to Basket

« Hide

MAKIIWTRTD EAPLLATYSL KPVVEAFAAT AGIEVETRDI SLAGRILAQF    50
PERLTEDQKV GNALAELGEL AKTPEANIIK LPNISASVPQ LKAAIKELQD 100
QGYDIPELPD NATTDEEKDI LARYNAVKGS AVNPVLREGN SDRRAPIAVK 150
NFVKKFPHRM GEWSADSKTN VATMDANDFR HNEKSIILDA ADEVQIKHIA 200
ADGTETILKD SLKLLEGEVL DGTVLSAKAL DAFLLEQVAR AKAEGILFSA 250
HLKATMMKVS DPIIFGHVVR AYFADVFAQY GEQLLAAGLN GENGLAAILS 300
GLESLDNGEE IKAAFEKGLE DGPDLAMVNS ARGITNLHVP SDVIVDASMP 350
AMIRTSGHMW NKDDQEQDTL AIIPDSSYAG VYQTVIEDCR KNGAFDPTTM 400
GTVPNVGLMA QKAEEYGSHD KTFRIEADGV VQVVSSNGDV LIEHDVEAND 450
IWRACQVKDA PIQDWVKLAV TRSRLSGMPA VFWLDPERAH DRNLASLVEK 500
YLADHDTEGL DIQILSPVEA TQLSIDRIRR GEDTISVTGN VLRDYNTDLF 550
PILELGTSAK MLSVVPLMAG GGLFETGAGG SAPKHVQQVQ EENHLRWDSL 600
GEFLALAESF RHELNNNGNT KAGVLADALD KATEKLLNEE KSPSRKVGEI 650
DNRGSHFWLT KFWADELAAQ TEDADLAATF APVAEALNTG AADIDAALLA 700
VQGGATDLGG YYSPNEEKLT NIMRPVAQFN EIVDALKK 738
Length:738
Mass (Da):80,081
Last modified:October 1, 1996 - v1
Checksum:iEAC4C5FA38C33F63
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
X71489 Genomic DNA. Translation: CAA50590.1.
BA000036 Genomic DNA. Translation: BAB98057.1.
BX927149 Genomic DNA. Translation: CAF19369.1.
PIRiI40719.
RefSeqiNP_599896.1. NC_003450.3.
WP_011013800.1. NC_006958.1.
YP_224955.1. NC_006958.1.

Genome annotation databases

EnsemblBacteriaiBAB98057; BAB98057; BAB98057.
CAF19369; CAF19369; cg0766.
GeneIDi1018663.
KEGGicgb:cg0766.
cgl:NCgl0634.
PATRICi21493369. VBICorGlu203724_0650.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
X71489 Genomic DNA. Translation: CAA50590.1 .
BA000036 Genomic DNA. Translation: BAB98057.1 .
BX927149 Genomic DNA. Translation: CAF19369.1 .
PIRi I40719.
RefSeqi NP_599896.1. NC_003450.3.
WP_011013800.1. NC_006958.1.
YP_224955.1. NC_006958.1.

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
2B0T X-ray 1.75 A 1-738 [» ]
3MBC X-ray 1.90 A/B 1-738 [» ]
ProteinModelPortali P50216.
SMRi P50216. Positions 2-736.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 196627.cg0766.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai BAB98057 ; BAB98057 ; BAB98057 .
CAF19369 ; CAF19369 ; cg0766 .
GeneIDi 1018663.
KEGGi cgb:cg0766.
cgl:NCgl0634.
PATRICi 21493369. VBICorGlu203724_0650.

Phylogenomic databases

eggNOGi COG2838.
HOGENOMi HOG000240860.
KOi K00031.
OMAi QVQEENH.
OrthoDBi EOG6DVJPP.

Miscellaneous databases

EvolutionaryTracei P50216.

Family and domain databases

Gene3Di 3.40.718.10. 3 hits.
InterProi IPR004436. Isocitrate_DH_NADP_mono.
IPR024084. IsoPropMal-DH-like_dom.
[Graphical view ]
Pfami PF03971. IDH. 1 hit.
[Graphical view ]
PIRSFi PIRSF009407. IDH_monmr. 1 hit.
TIGRFAMsi TIGR00178. monomer_idh. 1 hit.
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "Cloning, sequence analysis, expression, and inactivation of the Corynebacterium glutamicum icd gene encoding isocitrate dehydrogenase and biochemical characterization of the enzyme."
    Eikmanns B.J., Rittmann D., Sahm H.
    J. Bacteriol. 177:774-782(1995) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: ATCC 13032 / DSM 20300 / JCM 1318 / LMG 3730 / NCIMB 10025.
  2. "The Corynebacterium glutamicum genome: features and impacts on biotechnological processes."
    Ikeda M., Nakagawa S.
    Appl. Microbiol. Biotechnol. 62:99-109(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 13032 / DSM 20300 / JCM 1318 / LMG 3730 / NCIMB 10025.
  3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 13032 / DSM 20300 / JCM 1318 / LMG 3730 / NCIMB 10025.
  4. "Substrate-free structure of a monomeric NADP isocitrate dehydrogenase: an open conformation phylogenetic relationship of isocitrate dehydrogenase."
    Imabayashi F., Aich S., Prasad L., Delbaere L.T.
    Proteins 63:100-112(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (1.75 ANGSTROMS) IN COMPLEX WITH MAGNESIUM, SUBUNIT.

Entry informationi

Entry nameiIDH_CORGL
AccessioniPrimary (citable) accession number: P50216
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1996
Last sequence update: October 1, 1996
Last modified: September 3, 2014
This is version 91 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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