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Protein

Isocitrate dehydrogenase [NAD] catalytic subunit 6, mitochondrial

Gene

IDH6

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

  • isocitrate dehydrogenase (NAD+) activity Source: TAIR
  • magnesium ion binding Source: InterPro
  • NAD binding Source: InterPro

GO - Biological processi

  • isocitrate metabolic process Source: TAIR
  • 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

BRENDAi1.1.1.41. 399.
ReactomeiREACT_289406. Citric acid cycle (TCA cycle).

Names & Taxonomyi

Protein namesi
Recommended name:
Isocitrate dehydrogenase [NAD] catalytic subunit 6, mitochondrial (EC:1.1.1.41)
Alternative name(s):
IDH-VI
Isocitric dehydrogenase 6
NAD(+)-specific ICDH 6
Gene namesi
Name:IDH6
Ordered Locus Names:At3g09810, At3g09805
ORF Names:F8A24.14
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
ProteomesiUP000006548 Componenti: Chromosome 3

Organism-specific databases

TAIRiAT3G09810.

Subcellular locationi

GO - Cellular componenti

  • 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 6, mitochondrialPRO_0000271292Add
BLAST

Proteomic databases

PaxDbiQ8LG77.
PRIDEiQ8LG77.

Expressioni

Tissue specificityi

Ubiquitous. Predominantly expressed in leaves.1 Publication

Interactioni

Subunit structurei

Heterooligomer of catalytic and regulatory subunits.

Protein-protein interaction databases

STRINGi3702.AT3G09810.1.

Structurei

3D structure databases

ProteinModelPortaliQ8LG77.
SMRiQ8LG77. Positions 47-374.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Keywords - Domaini

Transit peptide

Phylogenomic databases

eggNOGiCOG0473.
HOGENOMiHOG000021113.
InParanoidiQ8LG77.
KOiK00030.
OMAiQCCDEVA.
PhylomeDBiQ8LG77.

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.

Q8LG77-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTMTAFLARR LIGNGSSQIL GTSSSSSGPF ISVSRAFFSS STPIKATLFP
60 70 80 90 100
GDGIGPEIAE SVKQVFTAAD VVIDWDEQFV GTEVDPRTNS FLTWDNLQSV
110 120 130 140 150
LKNKVGLKGP MATPIGKGHR SLNLTLRKEL NLYANVRPCY SLPGYKTRYD
160 170 180 190 200
DVDLITIREN TEGEYSGLEH QVVKGVVESL KIITRKASMR VAEYAFLYAK
210 220 230 240 250
THGRKKVSAI HKANIMQKTD GLFLQCCDEV AAKYPEIYYE KVVIDNCCMM
260 270 280 290 300
LVKNPALFDV LVMPNLYGDI ISDLCAGLVG GLGLTPSMNI GEDGIALAEA
310 320 330 340 350
VHGSAPDIAG MNLANPTALL LSGVMMLRHL KLNKQAEQIH SAIINTIAEG
360 370
KYRTADLGGS STTTDFTKAI CDHL
Length:374
Mass (Da):40,576
Last modified:January 9, 2007 - v2
Checksum:i3587127E0EAB87A4
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti3 – 31M → I in AAM60999 (Ref. 5) Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AC015985 Genomic DNA. Translation: AAF23254.1.
CP002686 Genomic DNA. Translation: AEE74815.1.
AF324664 mRNA. Translation: AAG40015.1.
AF327427 mRNA. Translation: AAG42017.1.
AF339723 mRNA. Translation: AAK00405.1.
AK176269 mRNA. Translation: BAD44032.1.
AK228113 mRNA. Translation: BAF00071.1.
AY084425 mRNA. Translation: AAM60999.1.
RefSeqiNP_850549.1. NM_180218.1.
UniGeneiAt.22515.

Genome annotation databases

EnsemblPlantsiAT3G09810.1; AT3G09810.1; AT3G09810.
GeneIDi820139.
KEGGiath:AT3G09810.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AC015985 Genomic DNA. Translation: AAF23254.1.
CP002686 Genomic DNA. Translation: AEE74815.1.
AF324664 mRNA. Translation: AAG40015.1.
AF327427 mRNA. Translation: AAG42017.1.
AF339723 mRNA. Translation: AAK00405.1.
AK176269 mRNA. Translation: BAD44032.1.
AK228113 mRNA. Translation: BAF00071.1.
AY084425 mRNA. Translation: AAM60999.1.
RefSeqiNP_850549.1. NM_180218.1.
UniGeneiAt.22515.

3D structure databases

ProteinModelPortaliQ8LG77.
SMRiQ8LG77. Positions 47-374.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi3702.AT3G09810.1.

Proteomic databases

PaxDbiQ8LG77.
PRIDEiQ8LG77.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT3G09810.1; AT3G09810.1; AT3G09810.
GeneIDi820139.
KEGGiath:AT3G09810.

Organism-specific databases

TAIRiAT3G09810.

Phylogenomic databases

eggNOGiCOG0473.
HOGENOMiHOG000021113.
InParanoidiQ8LG77.
KOiK00030.
OMAiQCCDEVA.
PhylomeDBiQ8LG77.

Enzyme and pathway databases

BRENDAi1.1.1.41. 399.
ReactomeiREACT_289406. Citric acid cycle (TCA cycle).

Miscellaneous databases

PROiQ8LG77.

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. "Sequence and analysis of chromosome 3 of the plant Arabidopsis thaliana."
    Salanoubat M., Lemcke K., Rieger M., Ansorge W., Unseld M., Fartmann B., Valle G., Bloecker H., Perez-Alonso M., Obermaier B., Delseny M., Boutry M., Grivell L.A., Mache R., Puigdomenech P., De Simone V., Choisne N., Artiguenave F.
    , Robert C., Brottier P., Wincker P., Cattolico L., Weissenbach J., Saurin W., Quetier F., Schaefer M., Mueller-Auer S., Gabel C., Fuchs M., Benes V., Wurmbach E., Drzonek H., Erfle H., Jordan N., Bangert S., Wiedelmann R., Kranz H., Voss H., Holland R., Brandt P., Nyakatura G., Vezzi A., D'Angelo M., Pallavicini A., Toppo S., Simionati B., Conrad A., Hornischer K., Kauer G., Loehnert T.-H., Nordsiek G., Reichelt J., Scharfe M., Schoen O., Bargues M., Terol J., Climent J., Navarro P., Collado C., Perez-Perez A., Ottenwaelder B., Duchemin D., Cooke R., Laudie M., Berger-Llauro C., Purnelle B., Masuy D., de Haan M., Maarse A.C., Alcaraz J.-P., Cottet A., Casacuberta E., Monfort A., Argiriou A., Flores M., Liguori R., Vitale D., Mannhaupt G., Haase D., Schoof H., Rudd S., Zaccaria P., Mewes H.-W., Mayer K.F.X., Kaul S., Town C.D., Koo H.L., Tallon L.J., Jenkins J., Rooney T., Rizzo M., Walts A., Utterback T., Fujii C.Y., Shea T.P., Creasy T.H., Haas B., Maiti R., Wu D., Peterson J., Van Aken S., Pai G., Militscher J., Sellers P., Gill J.E., Feldblyum T.V., Preuss D., Lin X., Nierman W.C., Salzberg S.L., White O., Venter J.C., Fraser C.M., Kaneko T., Nakamura Y., Sato S., Kato T., Asamizu E., Sasamoto S., Kimura T., Idesawa K., Kawashima K., Kishida Y., Kiyokawa C., Kohara M., Matsumoto M., Matsuno A., Muraki A., Nakayama S., Nakazaki N., Shinpo S., Takeuchi C., Wada T., Watanabe A., Yamada M., Yasuda M., Tabata S.
    Nature 408:820-822(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Columbia.
  2. The Arabidopsis Information Resource (TAIR)
    Submitted (APR-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(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: cv. Columbia.
  4. "Large-scale analysis of RIKEN Arabidopsis full-length (RAFL) cDNAs."
    Totoki Y., Seki M., Ishida J., Nakajima M., Enju A., Kamiya A., Narusaka M., Shin-i T., Nakagawa M., Sakamoto N., Oishi K., Kohara Y., Kobayashi M., Toyoda A., Sakaki Y., Sakurai T., Iida K., Akiyama K.
    , Satou M., Toyoda T., Konagaya A., Carninci P., Kawai J., Hayashizaki Y., Shinozaki K.
    Submitted (JUL-2006) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: cv. Columbia.
  5. "Full-length cDNA from Arabidopsis thaliana."
    Brover V.V., Troukhan M.E., Alexandrov N.A., Lu Y.-P., Flavell R.B., Feldmann K.A.
    Submitted (MAR-2002) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
  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(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
    Strain: cv. Landsberg erecta.
  7. "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.
  8. "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 nameiIDH6_ARATH
AccessioniPrimary (citable) accession number: Q8LG77
Secondary accession number(s): Q9SF84
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 9, 2007
Last sequence update: January 9, 2007
Last modified: June 24, 2015
This is version 91 of the entry and version 2 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.