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Protein

Isocitrate dehydrogenase [NADP], chloroplastic/mitochondrial

Gene

At5g14590

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at transcript leveli

Functioni

May be involved in response to oxidative stresses.By similarity

Catalytic activityi

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

Cofactori

Mg2+By similarity, Mn2+By similarityNote: Binds 1 Mg(2+) or Mn2+ ion per subunit.By similarity

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei149 – 1491SubstrateBy similarity
Binding sitei154 – 1541NADPBy similarity
Binding sitei181 – 1811SubstrateBy similarity
Binding sitei204 – 2041SubstrateBy similarity
Sitei211 – 2111Critical for catalysisBy similarity
Sitei283 – 2831Critical for catalysisBy similarity
Metal bindingi323 – 3231Magnesium or manganeseBy similarity
Binding sitei331 – 3311NADPBy similarity
Metal bindingi346 – 3461Magnesium or manganeseBy similarity
Binding sitei399 – 3991NADP; via amide nitrogen and carbonyl oxygenBy similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi147 – 1493NADPBy similarity
Nucleotide bindingi381 – 3866NADPBy similarity

GO - Molecular functioni

  1. isocitrate dehydrogenase (NADP+) activity Source: UniProtKB-EC
  2. magnesium ion binding Source: InterPro
  3. NAD binding Source: InterPro

GO - Biological processi

  1. isocitrate metabolic process Source: InterPro
  2. tricarboxylic acid cycle Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Biological processi

Stress response, Tricarboxylic acid cycle

Keywords - Ligandi

Magnesium, Manganese, Metal-binding, NADP

Enzyme and pathway databases

BioCyciARA:AT5G14590-MONOMER.
ReactomeiREACT_282562. Abnormal conversion of 2-oxoglutarate to 2-hydroxyglutarate.
REACT_289406. Citric acid cycle (TCA cycle).
REACT_317529. NADPH regeneration.

Names & Taxonomyi

Protein namesi
Recommended name:
Isocitrate dehydrogenase [NADP], chloroplastic/mitochondrial (EC:1.1.1.42)
Gene namesi
Ordered Locus Names:At5g14590
ORF Names:T15N1.80
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
ProteomesiUP000006548 Componenti: Chromosome 5

Organism-specific databases

TAIRiAT5G14590.

Subcellular locationi

GO - Cellular componenti

  1. chloroplast Source: TAIR
  2. chloroplast stroma Source: TAIR
  3. chloroplast thylakoid Source: TAIR
  4. mitochondrion Source: TAIR
Complete GO annotation...

Keywords - Cellular componenti

Chloroplast, Mitochondrion, Plastid

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Transit peptidei1 – 6565Chloroplast and mitochondrionSequence AnalysisAdd
BLAST
Chaini66 – 485420Isocitrate dehydrogenase [NADP], chloroplastic/mitochondrialPRO_0000421964Add
BLAST

Proteomic databases

PaxDbiQ8LPJ5.
PRIDEiQ8LPJ5.

Expressioni

Gene expression databases

GenevestigatoriQ8LPJ5.

Interactioni

Protein-protein interaction databases

STRINGi3702.AT5G14590.1-P.

Structurei

3D structure databases

ProteinModelPortaliQ8LPJ5.
SMRiQ8LPJ5. Positions 75-475.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni166 – 1727Substrate bindingBy similarity

Sequence similaritiesi

Keywords - Domaini

Transit peptide

Phylogenomic databases

eggNOGiCOG0538.
HOGENOMiHOG000019858.
InParanoidiQ8LPJ5.
KOiK00031.
OMAiKVSREFY.
PhylomeDBiQ8LPJ5.

Family and domain databases

Gene3Di3.40.718.10. 1 hit.
InterProiIPR019818. IsoCit/isopropylmalate_DH_CS.
IPR004790. Isocitrate_DH_NADP.
IPR024084. IsoPropMal-DH-like_dom.
[Graphical view]
PANTHERiPTHR11822. PTHR11822. 1 hit.
PfamiPF00180. Iso_dh. 1 hit.
[Graphical view]
PIRSFiPIRSF000108. IDH_NADP. 1 hit.
TIGRFAMsiTIGR00127. nadp_idh_euk. 1 hit.
PROSITEiPS00470. IDH_IMDH. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

Q8LPJ5-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MLNKLTHGVF TYRASLTAML SSSTSAGLSS SFVSSRFLSS GIFSSGASRN
60 70 80 90 100
RVTFPVQFHR ASAVRCFASS GGSDRIQVQN PIVEMDGDEM TRVIWSMIKE
110 120 130 140 150
KLILPYLDLD IKYFDLGILN RDATDDKVTV ESAEAALKYN VAIKCATITP
160 170 180 190 200
DEGRVKEFGL KSMWRSPNGT IRNILDGTVF REPIMCSNIP RLVPGWEKPI
210 220 230 240 250
CIGRHAFGDQ YRATDTVIKG PGKLKMVFVP EDGNAPVELD VYDFKGPGVA
260 270 280 290 300
LAMYNVDESI RAFAESSMAM ALTKKWPLYL STKNTILKKY DGRFKDIFQE
310 320 330 340 350
VYEANWKQKF EEHSIWYEHR LIDDMVAYAV KSEGGYVWAC KNYDGDVQSD
360 370 380 390 400
LLAQGFGSLG LMTSVLLSAD GKTLESEAAH GTVTRHFRLH QKGQETSTNS
410 420 430 440 450
IASIFAWTRG LEHRAKLDKN EKLMDFVKKL ESSCVNTVET GKMTKDLALL
460 470 480
IHGPKVSRDL FLNTEEFIDA VASKLKTQFK ELPLV
Length:485
Mass (Da):54,196
Last modified:September 30, 2002 - v1
Checksum:iCBCD72BB38C7EF5F
GO

Sequence cautioni

The sequence CAB87626.1 differs from that shown. Reason: Erroneous gene model prediction. Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AL163792 Genomic DNA. Translation: CAB87626.1. Sequence problems.
CP002688 Genomic DNA. Translation: AED92051.1.
AY099683 mRNA. Translation: AAM20534.1.
BT000276 mRNA. Translation: AAN15595.1.
PIRiT48632.
RefSeqiNP_196963.2. NM_121463.4.
UniGeneiAt.46811.

Genome annotation databases

EnsemblPlantsiAT5G14590.1; AT5G14590.1; AT5G14590.
GeneIDi831311.
KEGGiath:AT5G14590.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AL163792 Genomic DNA. Translation: CAB87626.1. Sequence problems.
CP002688 Genomic DNA. Translation: AED92051.1.
AY099683 mRNA. Translation: AAM20534.1.
BT000276 mRNA. Translation: AAN15595.1.
PIRiT48632.
RefSeqiNP_196963.2. NM_121463.4.
UniGeneiAt.46811.

3D structure databases

ProteinModelPortaliQ8LPJ5.
SMRiQ8LPJ5. Positions 75-475.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi3702.AT5G14590.1-P.

Proteomic databases

PaxDbiQ8LPJ5.
PRIDEiQ8LPJ5.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT5G14590.1; AT5G14590.1; AT5G14590.
GeneIDi831311.
KEGGiath:AT5G14590.

Organism-specific databases

GeneFarmi4411.
TAIRiAT5G14590.

Phylogenomic databases

eggNOGiCOG0538.
HOGENOMiHOG000019858.
InParanoidiQ8LPJ5.
KOiK00031.
OMAiKVSREFY.
PhylomeDBiQ8LPJ5.

Enzyme and pathway databases

BioCyciARA:AT5G14590-MONOMER.
ReactomeiREACT_282562. Abnormal conversion of 2-oxoglutarate to 2-hydroxyglutarate.
REACT_289406. Citric acid cycle (TCA cycle).
REACT_317529. NADPH regeneration.

Miscellaneous databases

PROiQ8LPJ5.

Gene expression databases

GenevestigatoriQ8LPJ5.

Family and domain databases

Gene3Di3.40.718.10. 1 hit.
InterProiIPR019818. IsoCit/isopropylmalate_DH_CS.
IPR004790. Isocitrate_DH_NADP.
IPR024084. IsoPropMal-DH-like_dom.
[Graphical view]
PANTHERiPTHR11822. PTHR11822. 1 hit.
PfamiPF00180. Iso_dh. 1 hit.
[Graphical view]
PIRSFiPIRSF000108. IDH_NADP. 1 hit.
TIGRFAMsiTIGR00127. nadp_idh_euk. 1 hit.
PROSITEiPS00470. IDH_IMDH. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Sequence and analysis of chromosome 5 of the plant Arabidopsis thaliana."
    Tabata S., Kaneko T., Nakamura Y., Kotani H., Kato T., Asamizu E., Miyajima N., Sasamoto S., Kimura T., Hosouchi T., Kawashima K., Kohara M., Matsumoto M., Matsuno A., Muraki A., Nakayama S., Nakazaki N., Naruo K.
    , Okumura S., Shinpo S., Takeuchi C., Wada T., Watanabe A., Yamada M., Yasuda M., Sato S., de la Bastide M., Huang E., Spiegel L., Gnoj L., O'Shaughnessy A., Preston R., Habermann K., Murray J., Johnson D., Rohlfing T., Nelson J., Stoneking T., Pepin K., Spieth J., Sekhon M., Armstrong J., Becker M., Belter E., Cordum H., Cordes M., Courtney L., Courtney W., Dante M., Du H., Edwards J., Fryman J., Haakensen B., Lamar E., Latreille P., Leonard S., Meyer R., Mulvaney E., Ozersky P., Riley A., Strowmatt C., Wagner-McPherson C., Wollam A., Yoakum M., Bell M., Dedhia N., Parnell L., Shah R., Rodriguez M., Hoon See L., Vil D., Baker J., Kirchoff K., Toth K., King L., Bahret A., Miller B., Marra M.A., Martienssen R., McCombie W.R., Wilson R.K., Murphy G., Bancroft I., Volckaert G., Wambutt R., Duesterhoeft A., Stiekema W., Pohl T., Entian K.-D., Terryn N., Hartley N., Bent E., Johnson S., Langham S.-A., McCullagh B., Robben J., Grymonprez B., Zimmermann W., Ramsperger U., Wedler H., Balke K., Wedler E., Peters S., van Staveren M., Dirkse W., Mooijman P., Klein Lankhorst R., Weitzenegger T., Bothe G., Rose M., Hauf J., Berneiser S., Hempel S., Feldpausch M., Lamberth S., Villarroel R., Gielen J., Ardiles W., Bents O., Lemcke K., Kolesov G., Mayer K.F.X., Rudd S., Schoof H., Schueller C., Zaccaria P., Mewes H.-W., Bevan M., Fransz P.F.
    Nature 408:823-826(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Columbia.
  2. The Arabidopsis Information Resource (TAIR)
    Submitted (MAR-2011) to the EMBL/GenBank/DDBJ databases
    Cited for: GENOME REANNOTATION.
    Strain: cv. Columbia.
  3. "Empirical analysis of transcriptional activity in the Arabidopsis genome."
    Yamada K., Lim J., Dale J.M., Chen H., Shinn P., Palm C.J., Southwick A.M., Wu H.C., Kim C.J., Nguyen M., Pham P.K., Cheuk R.F., Karlin-Newmann G., Liu S.X., Lam B., Sakano H., Wu T., Yu G.
    , Miranda M., Quach H.L., Tripp M., Chang C.H., Lee J.M., Toriumi M.J., Chan M.M., Tang C.C., Onodera C.S., Deng J.M., Akiyama K., Ansari Y., Arakawa T., Banh J., Banno F., Bowser L., Brooks S.Y., Carninci P., Chao Q., Choy N., Enju A., Goldsmith A.D., Gurjal M., Hansen N.F., Hayashizaki Y., Johnson-Hopson C., Hsuan V.W., Iida K., Karnes M., Khan S., Koesema E., Ishida J., Jiang P.X., Jones T., Kawai J., Kamiya A., Meyers C., Nakajima M., Narusaka M., Seki M., Sakurai T., Satou M., Tamse R., Vaysberg M., Wallender E.K., Wong C., Yamamura Y., Yuan S., Shinozaki K., Davis R.W., Theologis A., Ecker J.R.
    Science 302:842-846(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: cv. Columbia.
  4. "Sorting signals, N-terminal modifications and abundance of the chloroplast proteome."
    Zybailov B., Rutschow H., Friso G., Rudella A., Emanuelsson O., Sun Q., van Wijk K.J.
    PLoS ONE 3:E1994-E1994(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
  5. "AT_CHLORO, a comprehensive chloroplast proteome database with subplastidial localization and curated information on envelope proteins."
    Ferro M., Brugiere S., Salvi D., Seigneurin-Berny D., Court M., Moyet L., Ramus C., Miras S., Mellal M., Le Gall S., Kieffer-Jaquinod S., Bruley C., Garin J., Joyard J., Masselon C., Rolland N.
    Mol. Cell. Proteomics 9:1063-1084(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
  6. "Experimental analysis of the Arabidopsis mitochondrial proteome highlights signaling and regulatory components, provides assessment of targeting prediction programs, and indicates plant-specific mitochondrial proteins."
    Heazlewood J.L., Tonti-Filippini J.S., Gout A.M., Day D.A., Whelan J., Millar A.H.
    Plant Cell 16:241-256(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
  7. "Defining the protein complex proteome of plant mitochondria."
    Klodmann J., Senkler M., Rode C., Braun H.-P.
    Plant Physiol. 157:587-598(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].

Entry informationi

Entry nameiICDHP_ARATH
AccessioniPrimary (citable) accession number: Q8LPJ5
Secondary accession number(s): Q9LYK1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 2, 2013
Last sequence update: September 30, 2002
Last modified: March 31, 2015
This is version 90 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.