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Protein

Isocitrate dehydrogenase [NAD] catalytic subunit 5, mitochondrial

Gene

IDH5

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

Functioni

Performs an essential role in the oxidative function of the citric acid cycle.By similarity

Catalytic activityi

Isocitrate + NAD+ = 2-oxoglutarate + CO2 + NADH.

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 sitei127 – 1271SubstrateBy similarity
Binding sitei137 – 1371SubstrateBy similarity
Binding sitei158 – 1581SubstrateBy similarity
Sitei165 – 1651Critical for catalysisBy similarity
Sitei212 – 2121Critical for catalysisBy similarity
Metal bindingi245 – 2451Magnesium or manganeseBy similarity
Binding sitei245 – 2451SubstrateBy similarity
Metal bindingi269 – 2691Magnesium or manganeseBy similarity
Metal bindingi273 – 2731Magnesium or manganeseBy similarity

GO - Molecular functioni

  1. ATP binding Source: TAIR
  2. isocitrate dehydrogenase (NAD+) activity Source: TAIR
  3. magnesium ion binding Source: InterPro
  4. NAD binding Source: InterPro
  5. zinc ion binding Source: TAIR

GO - Biological processi

  1. isocitrate metabolic process Source: TAIR
  2. tricarboxylic acid cycle Source: TAIR
Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Biological processi

Tricarboxylic acid cycle

Keywords - Ligandi

Magnesium, Manganese, Metal-binding, NAD

Enzyme and pathway databases

BioCyciMetaCyc:AT5G03290-MONOMER.
ReactomeiREACT_242439. Citric acid cycle (TCA cycle).

Names & Taxonomyi

Protein namesi
Recommended name:
Isocitrate dehydrogenase [NAD] catalytic subunit 5, mitochondrial (EC:1.1.1.41)
Alternative name(s):
IDH-V
Isocitric dehydrogenase 5
NAD(+)-specific ICDH 5
Gene namesi
Name:IDH5
Ordered Locus Names:At5g03290
ORF Names:F12E4_20, MOK16.20
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
ProteomesiUP000006548: Chromosome 5

Organism-specific databases

TAIRiAT5G03290.

Subcellular locationi

Mitochondrion 1 Publication

GO - Cellular componenti

  1. chloroplast Source: TAIR
  2. mitochondrion Source: TAIR
Complete GO annotation...

Keywords - Cellular componenti

Mitochondrion

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Transit peptidei1 – 4444MitochondrionSequence AnalysisAdd
BLAST
Chaini45 – 374330Isocitrate dehydrogenase [NAD] catalytic subunit 5, mitochondrialPRO_0000271291Add
BLAST

Proteomic databases

PaxDbiQ945K7.
PRIDEiQ945K7.

Expressioni

Tissue specificityi

Ubiquitous.1 Publication

Gene expression databases

GenevestigatoriQ945K7.

Interactioni

Subunit structurei

Heterooligomer of catalytic and regulatory subunits.

Protein-protein interaction databases

BioGridi17160. 2 interactions.
IntActiQ945K7. 1 interaction.
STRINGi3702.AT5G03290.1-P.

Structurei

3D structure databases

ProteinModelPortaliQ945K7.
SMRiQ945K7. Positions 40-374.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Keywords - Domaini

Transit peptide

Phylogenomic databases

eggNOGiCOG0473.
HOGENOMiHOG000021113.
InParanoidiQ945K7.
KOiK00030.
OMAiQITTFAY.
PhylomeDBiQ945K7.

Family and domain databases

Gene3Di3.40.718.10. 1 hit.
InterProiIPR019818. IsoCit/isopropylmalate_DH_CS.
IPR001804. Isocitrate/isopropylmalate_DH.
IPR004434. Isocitrate_DH_NAD.
IPR024084. IsoPropMal-DH-like_dom.
[Graphical view]
PANTHERiPTHR11835. PTHR11835. 1 hit.
PfamiPF00180. Iso_dh. 1 hit.
[Graphical view]
TIGRFAMsiTIGR00175. mito_nad_idh. 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.

Q945K7-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTMAANLARR LIGNRSTQIL GAVNSSSGAA SSVARAFCSS TTPITATLFP
60 70 80 90 100
GDGIGPEIAE SVKKVFTTAG VPIEWEEHYV GTEIDPRTQS FLTWESLESV
110 120 130 140 150
RRNKVGLKGP MATPIGKGHR SLNLTLRKEL NLYANVRPCY SLPGYKTRYD
160 170 180 190 200
DVDLITIREN TEGEYSGLEH QVVRGVVESL KIITRQASLR VAEYAFLYAK
210 220 230 240 250
THGRERVSAI HKANIMQKTD GLFLKCCREV AEKYPEITYE EVVIDNCCMM
260 270 280 290 300
LVKNPALFDV LVMPNLYGDI ISDLCAGLVG GLGLTPSCNI GEDGVALAEA
310 320 330 340 350
VHGSAPDIAG KNLANPTALL LSGVMMLRHL KFNEQAEQIH SAIINTIAEG
360 370
KYRTADLGGS STTTEFTKAI CDHL
Length:374
Mass (Da):40,625
Last modified:December 1, 2001 - v1
Checksum:i723D0150C360F7A1
GO

Sequence cautioni

The sequence BAB08389.1 differs from that shown. Reason: Erroneous initiation. Curated
The sequence CAB83285.1 differs from that shown. Reason: Erroneous initiation. Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB005240 Genomic DNA. Translation: BAB08389.1. Different initiation.
AL162751 Genomic DNA. Translation: CAB83285.1. Different initiation.
CP002688 Genomic DNA. Translation: AED90581.1.
AF412100 mRNA. Translation: AAL06553.1.
AY099823 mRNA. Translation: AAM20674.1.
BT008460 mRNA. Translation: AAP37819.1.
PIRiT48350.
RefSeqiNP_568113.1. NM_120407.5.
UniGeneiAt.25268.

Genome annotation databases

EnsemblPlantsiAT5G03290.1; AT5G03290.1; AT5G03290.
GeneIDi831884.
KEGGiath:AT5G03290.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB005240 Genomic DNA. Translation: BAB08389.1. Different initiation.
AL162751 Genomic DNA. Translation: CAB83285.1. Different initiation.
CP002688 Genomic DNA. Translation: AED90581.1.
AF412100 mRNA. Translation: AAL06553.1.
AY099823 mRNA. Translation: AAM20674.1.
BT008460 mRNA. Translation: AAP37819.1.
PIRiT48350.
RefSeqiNP_568113.1. NM_120407.5.
UniGeneiAt.25268.

3D structure databases

ProteinModelPortaliQ945K7.
SMRiQ945K7. Positions 40-374.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi17160. 2 interactions.
IntActiQ945K7. 1 interaction.
STRINGi3702.AT5G03290.1-P.

Proteomic databases

PaxDbiQ945K7.
PRIDEiQ945K7.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT5G03290.1; AT5G03290.1; AT5G03290.
GeneIDi831884.
KEGGiath:AT5G03290.

Organism-specific databases

TAIRiAT5G03290.

Phylogenomic databases

eggNOGiCOG0473.
HOGENOMiHOG000021113.
InParanoidiQ945K7.
KOiK00030.
OMAiQITTFAY.
PhylomeDBiQ945K7.

Enzyme and pathway databases

BioCyciMetaCyc:AT5G03290-MONOMER.
ReactomeiREACT_242439. Citric acid cycle (TCA cycle).

Gene expression databases

GenevestigatoriQ945K7.

Family and domain databases

Gene3Di3.40.718.10. 1 hit.
InterProiIPR019818. IsoCit/isopropylmalate_DH_CS.
IPR001804. Isocitrate/isopropylmalate_DH.
IPR004434. Isocitrate_DH_NAD.
IPR024084. IsoPropMal-DH-like_dom.
[Graphical view]
PANTHERiPTHR11835. PTHR11835. 1 hit.
PfamiPF00180. Iso_dh. 1 hit.
[Graphical view]
TIGRFAMsiTIGR00175. mito_nad_idh. 1 hit.
PROSITEiPS00470. IDH_IMDH. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Structural analysis of Arabidopsis thaliana chromosome 5. I. Sequence features of the 1.6 Mb regions covered by twenty physically assigned P1 clones."
    Sato S., Kotani H., Nakamura Y., Kaneko T., Asamizu E., Fukami M., Miyajima N., Tabata S.
    DNA Res. 4:215-230(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Columbia.
  2. "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(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Columbia.
  3. The Arabidopsis Information Resource (TAIR)
    Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases
    Cited for: GENOME REANNOTATION.
    Strain: cv. Columbia.
  4. "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(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: cv. Columbia.
  5. "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(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
    Strain: cv. Landsberg erecta.
  6. "Characterization of a mutation in the IDH-II subunit of the NAD(+)-dependent isocitrate dehydrogenase from Arabidopsis thaliana."
    Lin M., Behal R.H., Oliver D.J.
    Plant Sci. 166:983-988(2004)
    [AGRICOLA] [Europe PMC]
    Cited for: GENE FAMILY.
  7. "Expression analysis of Arabidopsis thaliana NAD-dependent isocitrate dehydrogenase genes shows the presence of a functional subunit that is mainly expressed in the pollen and absent from vegetative organs."
    Lemaitre T., Hodges M.
    Plant Cell Physiol. 47:634-643(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: TISSUE SPECIFICITY.

Entry informationi

Entry nameiIDH5_ARATH
AccessioniPrimary (citable) accession number: Q945K7
Secondary accession number(s): Q9LZG1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 9, 2007
Last sequence update: December 1, 2001
Last modified: January 7, 2015
This is version 92 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.