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Q38799

- ODPB1_ARATH

UniProt

Q38799 - ODPB1_ARATH

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Protein
Pyruvate dehydrogenase E1 component subunit beta-1, mitochondrial
Gene
PDH2, MAB1, At5g50850, K16E14.1
Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed - Annotation score: 5 out of 5 - Experimental evidence at protein leveli

Functioni

The pyruvate dehydrogenase complex catalyzes the overall conversion of pyruvate to acetyl-CoA and CO2. It contains multiple copies of three enzymatic components: pyruvate dehydrogenase (E1), dihydrolipoamide acetyltransferase (E2) and lipoamide dehydrogenase (E3).

Catalytic activityi

Pyruvate + [dihydrolipoyllysine-residue acetyltransferase] lipoyllysine = [dihydrolipoyllysine-residue acetyltransferase] S-acetyldihydrolipoyllysine + CO2.

Cofactori

Thiamine pyrophosphate.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei92 – 921Thiamine pyrophosphate By similarity

GO - Molecular functioni

  1. pyruvate dehydrogenase (acetyl-transferring) activity Source: UniProtKB-EC

GO - Biological processi

  1. acetyl-CoA biosynthetic process from pyruvate Source: InterPro
  2. defense response to bacterium Source: TAIR
  3. glycolytic process Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Biological processi

Glycolysis

Keywords - Ligandi

Pyruvate, Thiamine pyrophosphate

Enzyme and pathway databases

BioCyciARA:AT5G50850-MONOMER.
RETL1328306-WGS:GSTH-5057-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Pyruvate dehydrogenase E1 component subunit beta-1, mitochondrial (EC:1.2.4.1)
Short name:
PDHE1-B
Alternative name(s):
Protein MACCI-BOU
Gene namesi
Name:PDH2
Synonyms:MAB1
Ordered Locus Names:At5g50850
ORF Names:K16E14.1
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
ProteomesiUP000006548: Chromosome 5

Organism-specific databases

TAIRiAT5G50850.

Subcellular locationi

Mitochondrion matrix 1 Publication

GO - Cellular componenti

  1. apoplast Source: TAIR
  2. mitochondrial matrix Source: UniProtKB-SubCell
  3. mitochondrion Source: TAIR
  4. nucleolus Source: TAIR
  5. vacuolar membrane Source: TAIR
Complete GO annotation...

Keywords - Cellular componenti

Mitochondrion

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Transit peptidei1 – 2929Mitochondrion By similarity
Add
BLAST
Chaini30 – 363334Pyruvate dehydrogenase E1 component subunit beta-1, mitochondrial
PRO_0000020462Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Cross-linki34 – 34Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)1 Publication
Cross-linki247 – 247Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)1 Publication
Cross-linki254 – 254Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)1 Publication

Keywords - PTMi

Isopeptide bond, Ubl conjugation

Proteomic databases

PaxDbiQ38799.
PRIDEiQ38799.

2D gel databases

SWISS-2DPAGEQ38799.

Expressioni

Tissue specificityi

Expressed in roots, immature rosettes, and mature rosettes.1 Publication

Gene expression databases

GenevestigatoriQ38799.

Interactioni

Subunit structurei

Tetramer of 2 alpha and 2 beta subunits By similarity.

Protein-protein interaction databases

BioGridi20403. 2 interactions.
IntActiQ38799. 2 interactions.

Structurei

3D structure databases

ProteinModelPortaliQ38799.
SMRiQ38799. Positions 35-357.

Family & Domainsi

Keywords - Domaini

Transit peptide

Phylogenomic databases

eggNOGiCOG0022.
HOGENOMiHOG000281450.
InParanoidiQ38799.
KOiK00162.
OMAiDPKVFVM.
PhylomeDBiQ38799.

Family and domain databases

Gene3Di3.40.50.920. 1 hit.
3.40.50.970. 1 hit.
InterProiIPR027110. PDHB.
IPR029061. THDP-binding.
IPR009014. Transketo_C/Pyr-ferredox_oxred.
IPR005475. Transketolase-like_Pyr-bd.
IPR005476. Transketolase_C.
[Graphical view]
PANTHERiPTHR11624:SF56. PTHR11624:SF56. 1 hit.
PfamiPF02779. Transket_pyr. 1 hit.
PF02780. Transketolase_C. 1 hit.
[Graphical view]
SMARTiSM00861. Transket_pyr. 1 hit.
[Graphical view]
SUPFAMiSSF52518. SSF52518. 1 hit.
SSF52922. SSF52922. 1 hit.

Sequencei

Sequence statusi: Complete.

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

Q38799-1 [UniParc]FASTAAdd to Basket

« Hide

MLGILRQRAI DGASTLRRTR FALVSARSYA AGAKEMTVRD ALNSAIDEEM    50
SADPKVFVMG EEVGQYQGAY KITKGLLEKY GPERVYDTPI TEAGFTGIGV 100
GAAYAGLKPV VEFMTFNFSM QAIDHIINSA AKSNYMSAGQ INVPIVFRGP 150
NGAAAGVGAQ HSQCYAAWYA SVPGLKVLAP YSAEDARGLL KAAIRDPDPV 200
VFLENELLYG ESFPISEEAL DSSFCLPIGK AKIEREGKDV TIVTFSKMVG 250
FALKAAEKLA EEGISAEVIN LRSIRPLDRA TINASVRKTS RLVTVEEGFP 300
QHGVCAEICA SVVEESFSYL DAPVERIAGA DVPMPYAANL ERLALPQIED 350
IVRASKRACY RSK 363
Length:363
Mass (Da):39,176
Last modified:June 6, 2002 - v2
Checksum:iD044E3A336D4EC52
GO

Sequence conflict

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti334 – 3341M → I in AAA52225. 1 Publication
Sequence conflicti337 – 3371A → T in AAA52225. 1 Publication

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
U09137 mRNA. Translation: AAA52225.1.
AB026637 Genomic DNA. Translation: BAA98121.1.
CP002688 Genomic DNA. Translation: AED96001.1.
AY070728 mRNA. Translation: AAL50070.1.
BT000839 mRNA. Translation: AAN38676.1.
RefSeqiNP_199898.1. NM_124463.3.
UniGeneiAt.24270.

Genome annotation databases

EnsemblPlantsiAT5G50850.1; AT5G50850.1; AT5G50850.
GeneIDi835157.
KEGGiath:AT5G50850.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
U09137 mRNA. Translation: AAA52225.1 .
AB026637 Genomic DNA. Translation: BAA98121.1 .
CP002688 Genomic DNA. Translation: AED96001.1 .
AY070728 mRNA. Translation: AAL50070.1 .
BT000839 mRNA. Translation: AAN38676.1 .
RefSeqi NP_199898.1. NM_124463.3.
UniGenei At.24270.

3D structure databases

ProteinModelPortali Q38799.
SMRi Q38799. Positions 35-357.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 20403. 2 interactions.
IntActi Q38799. 2 interactions.

2D gel databases

SWISS-2DPAGE Q38799.

Proteomic databases

PaxDbi Q38799.
PRIDEi Q38799.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblPlantsi AT5G50850.1 ; AT5G50850.1 ; AT5G50850 .
GeneIDi 835157.
KEGGi ath:AT5G50850.

Organism-specific databases

GeneFarmi 2003.
TAIRi AT5G50850.

Phylogenomic databases

eggNOGi COG0022.
HOGENOMi HOG000281450.
InParanoidi Q38799.
KOi K00162.
OMAi DPKVFVM.
PhylomeDBi Q38799.

Enzyme and pathway databases

BioCyci ARA:AT5G50850-MONOMER.
RETL1328306-WGS:GSTH-5057-MONOMER.

Miscellaneous databases

PROi Q38799.

Gene expression databases

Genevestigatori Q38799.

Family and domain databases

Gene3Di 3.40.50.920. 1 hit.
3.40.50.970. 1 hit.
InterProi IPR027110. PDHB.
IPR029061. THDP-binding.
IPR009014. Transketo_C/Pyr-ferredox_oxred.
IPR005475. Transketolase-like_Pyr-bd.
IPR005476. Transketolase_C.
[Graphical view ]
PANTHERi PTHR11624:SF56. PTHR11624:SF56. 1 hit.
Pfami PF02779. Transket_pyr. 1 hit.
PF02780. Transketolase_C. 1 hit.
[Graphical view ]
SMARTi SM00861. Transket_pyr. 1 hit.
[Graphical view ]
SUPFAMi SSF52518. SSF52518. 1 hit.
SSF52922. SSF52922. 1 hit.
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "The nucleotide and deduced amino acid sequences of a cDNA encoding the E1 beta-subunit of the Arabidopsis thaliana mitochondrial pyruvate dehydrogenase complex."
    Luethy M.H., Miernyk J.A., Randall D.D.
    Biochim. Biophys. Acta 1187:95-98(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA], TISSUE SPECIFICITY.
    Strain: cv. Columbia.
  2. "Structural analysis of Arabidopsis thaliana chromosome 5. XI."
    Kaneko T., Katoh T., Asamizu E., Sato S., Nakamura Y., Kotani H., Tabata S.
    Submitted (APR-1999) to the EMBL/GenBank/DDBJ databases
    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. "Multidimensional protein identification technology (MudPIT) analysis of ubiquitinated proteins in plants."
    Maor R., Jones A., Nuehse T.S., Studholme D.J., Peck S.C., Shirasu K.
    Mol. Cell. Proteomics 6:601-610(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: UBIQUITINATION [LARGE SCALE ANALYSIS] AT LYS-34; LYS-247 AND LYS-254.
    Strain: cv. Landsberg erecta.

Entry informationi

Entry nameiODPB1_ARATH
AccessioniPrimary (citable) accession number: Q38799
Secondary accession number(s): Q9LSM8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 15, 1999
Last sequence update: June 6, 2002
Last modified: September 3, 2014
This is version 128 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

External Data

Dasty 3

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