Isocitrate dehydrogenase [NAD] catalytic subunit 5, mitochondrial precursor

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Q945K7 (IDH5_ARATH) Reviewed, UniProtKB/Swiss-Prot

Last modified May 1, 2013. Version 82. History...

Clusters with 100%, 90%, 50% identity |

Documents (2) |

Third-party data

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Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents Customize order

Names and origin

Protein names

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 names

Name:	IDH5
Ordered Locus Names:	At5g03290
ORF Names:	F12E4_20, MOK16.20

Organism

Arabidopsis thaliana (Mouse-ear cress) [Reference proteome]

Taxonomic identifier

3702 [NCBI]

Taxonomic lineage

Eukaryota › Viridiplantae › Streptophyta › Embryophyta › Tracheophyta › Spermatophyta › Magnoliophyta › eudicotyledons › core eudicotyledons › rosids › malvids › Brassicales › Brassicaceae › Camelineae › Arabidopsis

Protein attributes

Sequence length	374 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Performs an essential role in the oxidative function of the citric acid cycle By similarity.
Catalytic activity	Isocitrate + NAD⁺ = 2-oxoglutarate + CO₂ + NADH.
Cofactor	Binds 1 magnesium or manganese ion per subunit By similarity.
Subunit structure	Heterooligomer of catalytic and regulatory subunits.
Subcellular location	Mitochondrion.
Tissue specificity	Ubiquitous. Ref.7
Sequence similarities	Belongs to the isocitrate and isopropylmalate dehydrogenases family.
Sequence caution	The sequence BAB08389.1 differs from that shown. Reason: Erroneous initiation. The sequence CAB83285.1 differs from that shown. Reason: Erroneous initiation.

Ontologies

Keywords
Biological process	Tricarboxylic acid cycle
Cellular component	Mitochondrion
Domain	Transit peptide
Ligand	Magnesium Manganese Metal-binding NAD
Molecular function	Oxidoreductase
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	isocitrate metabolic process Inferred from mutant phenotype PubMed 17468208. Source: TAIR tricarboxylic acid cycle Traceable author statement PubMed 17468208. Source: TAIR
Cellular_component	chloroplast Inferred from direct assay PubMed 15028209. Source: TAIR mitochondrion Inferred from direct assay Ref.5 PubMed 17137349 PubMed 22923678. Source: TAIR
Molecular_function	ATP binding Inferred from direct assay PubMed 17137349. Source: TAIR NAD binding Inferred from electronic annotation. Source: InterPro isocitrate dehydrogenase (NAD+) activity Inferred from mutant phenotype PubMed 17468208. Source: TAIR magnesium ion binding Inferred from electronic annotation. Source: InterPro zinc ion binding Inferred from direct assay PubMed 20018591. Source: TAIR
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Transit peptide

1 – 44

Mitochondrion Potential

Chain

45 – 374

330

Isocitrate dehydrogenase [NAD] catalytic subunit 5, mitochondrial

PRO_0000271291

Sites

Metal binding

245

Magnesium or manganese By similarity

Metal binding

269

Magnesium or manganese By similarity

Metal binding

273

Magnesium or manganese By similarity

Binding site

127

Substrate By similarity

Binding site

137

Substrate By similarity

Binding site

158

Substrate By similarity

Binding site

245

Substrate By similarity

Site

165

Critical for catalysis By similarity

Site

212

Critical for catalysis By similarity

Sequences

Sequence

Length

Mass (Da)

Tools

Q945K7 [UniParc].

Last modified December 1, 2001. Version 1.
Checksum: 723D0150C360F7A1
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FASTA

374

40,625

        10         20         30         40         50         60 
MTMAANLARR LIGNRSTQIL GAVNSSSGAA SSVARAFCSS TTPITATLFP GDGIGPEIAE 

        70         80         90        100        110        120 
SVKKVFTTAG VPIEWEEHYV GTEIDPRTQS FLTWESLESV RRNKVGLKGP MATPIGKGHR 

       130        140        150        160        170        180 
SLNLTLRKEL NLYANVRPCY SLPGYKTRYD DVDLITIREN TEGEYSGLEH QVVRGVVESL 

       190        200        210        220        230        240 
KIITRQASLR VAEYAFLYAK THGRERVSAI HKANIMQKTD GLFLKCCREV AEKYPEITYE 

       250        260        270        280        290        300 
EVVIDNCCMM LVKNPALFDV LVMPNLYGDI ISDLCAGLVG GLGLTPSCNI GEDGVALAEA 

       310        320        330        340        350        360 
VHGSAPDIAG KNLANPTALL LSGVMMLRHL KFNEQAEQIH SAIINTIAEG KYRTADLGGS 

       370 
STTTEFTKAI CDHL

« Hide

References

	« Hide 'large scale' referencesShow 'large scale' references »
[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. 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. 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: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS], 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.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	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.
IPI	IPI00530201.
PIR	T48350.
RefSeq	NP_568113.1. NM_120407.5.
UniGene	At.25268.
3D structure databases
HSSP	HSSP built from PDB template 1X0L based on UniProtKB Q8RQU4.
ProteinModelPortal	Q945K7.
SMR	Q945K7. Positions 40-374.
ModBase	Search...
Protein-protein interaction databases
IntAct	Q945K7. 1 interaction.
STRING	3702.AT5G03290.1-P.
Proteomic databases
PaxDb	Q945K7.
PRIDE	Q945K7.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblPlants	AT5G03290.1; AT5G03290.1; AT5G03290.
GeneID	831884.
KEGG	ath:AT5G03290.
Organism-specific databases
TAIR	At5g03290.
Phylogenomic databases
eggNOG	COG0473.
HOGENOM	HOG000021113.
InParanoid	Q945K7.
KO	K00030.
OMA	NQKQVTR.
PhylomeDB	Q945K7.
ProtClustDB	PLN00118.
Enzyme and pathway databases
BioCyc	MetaCyc:AT5G03290-MONOMER.
Gene expression databases
Genevestigator	Q945K7.
Family and domain databases
Gene3D	3.40.718.10. 1 hit.
InterPro	IPR019818. IsoCit/isopropylmalate_DH_CS. IPR001804. Isocitrate/isopropylmalate_DH. IPR004434. Isocitrate_DH_NAD. IPR024084. IsoPropMal-DH-like_dom. [Graphical view]
PANTHER	PTHR11835. PTHR11835. 1 hit.
Pfam	PF00180. Iso_dh. 1 hit. [Graphical view]
TIGRFAMs	TIGR00175. mito_nad_idh. 1 hit.
PROSITE	PS00470. IDH_IMDH. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

IDH5_ARATH

Accession

Primary (citable) accession number: Q945K7
Secondary accession number(s): Q9LZG1

Entry history

Integrated into UniProtKB/Swiss-Prot:	January 9, 2007
Last sequence update:	December 1, 2001
Last modified:	May 1, 2013
This is version 82 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Plant Protein Annotation Program

Relevant documents

Arabidopsis thaliana

Arabidopsis thaliana: entries and gene names

SIMILARITY comments

Index of protein domains and families

Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents

Preferred order of sections

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Sequence annotation (Features)

Molecule processing

Sites

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

Proteomic databases

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Enzyme and pathway databases

Gene expression databases

Family and domain databases

Entry information

Relevant documents