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Q9R9N4

- ODPB_RHIME

UniProt

Q9R9N4 - ODPB_RHIME

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Protein

Pyruvate dehydrogenase E1 component subunit beta

Gene

pdhB

Organism
Rhizobium meliloti (strain 1021) (Ensifer meliloti) (Sinorhizobium meliloti)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi

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) (By similarity).By similarity

Catalytic activityi

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

Cofactori

Binds 1 lipoyl cofactor covalently.By similarity
Binds 1 thiamine pyrophosphate per subunit.By similarity

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei194 – 1941Thiamine pyrophosphateBy 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. 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

BioCyciSMEL266834:GJF6-1481-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Pyruvate dehydrogenase E1 component subunit beta (EC:1.2.4.1)
Gene namesi
Name:pdhB
Synonyms:pdhAbeta
Ordered Locus Names:R01446
ORF Names:SMc01031
OrganismiRhizobium meliloti (strain 1021) (Ensifer meliloti) (Sinorhizobium meliloti)
Taxonomic identifieri266834 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesRhizobiaceaeSinorhizobium/Ensifer groupSinorhizobium
ProteomesiUP000001976: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 460460Pyruvate dehydrogenase E1 component subunit betaPRO_0000162225Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei43 – 431N6-lipoyllysineSequence Analysis

Interactioni

Subunit structurei

Heterodimer of an alpha and a beta chain.

Protein-protein interaction databases

STRINGi266834.SMc01031.

Structurei

3D structure databases

ProteinModelPortaliQ9R9N4.
SMRiQ9R9N4. Positions 137-457.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini1 – 7777Lipoyl-bindingAdd
BLAST

Sequence similaritiesi

Contains 1 lipoyl-binding domain.Curated

Keywords - Domaini

Lipoyl

Phylogenomic databases

eggNOGiCOG0508.
HOGENOMiHOG000281450.
KOiK00162.
OMAiEISTHSF.
OrthoDBiEOG6JQH4C.

Family and domain databases

Gene3Di3.40.50.920. 1 hit.
3.40.50.970. 1 hit.
InterProiIPR003016. 2-oxoA_DH_lipoyl-BS.
IPR000089. Biotin_lipoyl.
IPR027110. PDHB.
IPR011053. Single_hybrid_motif.
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.
PfamiPF00364. Biotin_lipoyl. 1 hit.
PF02779. Transket_pyr. 1 hit.
PF02780. Transketolase_C. 1 hit.
[Graphical view]
SMARTiSM00861. Transket_pyr. 1 hit.
[Graphical view]
SUPFAMiSSF51230. SSF51230. 1 hit.
SSF52518. SSF52518. 1 hit.
SSF52922. SSF52922. 1 hit.
PROSITEiPS50968. BIOTINYL_LIPOYL. 1 hit.
PS00189. LIPOYL. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q9R9N4 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MPVEILMPAL SPTMEEGTLS KWLKNEGDKV SSGDVIAEIE TDKATMEVEA
60 70 80 90 100
VDEGTIGKLL IAAGTEGVKV NTPIAVLLQD GEAASDIDSM KTEAPKAETP
110 120 130 140 150
KPAAAEAPAA SAAPVAAQPK ADVPSDPAIP AGTEMATMTV REALRDAMAE
160 170 180 190 200
EMRANEDVFV MGEEVAEYQG AYKVTQGLLQ EFGARRVVDT PITEHGFAGV
210 220 230 240 250
GVGAAMTGLR PIVEFMTFNF AMQAIDQIIN SAAKTLYMSG GQMGAPIVFR
260 270 280 290 300
GPSGAAARVA AQHSQCYAAW YSHIPGLKVV MPYTAADAKG LLKAAIRDPN
310 320 330 340 350
PVIFLENEIL YGQSFEVPKL DDFVLPIGKA RIHRTGKDAT LVSFGIGMTY
360 370 380 390 400
AIKAAAELEA QGIDVEIIDL RTIRPMDLPT VIESVKKTGR LVTVEEGYPQ
410 420 430 440 450
SSVGTEIATR VMQQAFDYLD APILTIAGKD VPMPYAANLE KLALPNVAEV
460
VDAVKAVCYK
Length:460
Mass (Da):48,812
Last modified:May 30, 2000 - v2
Checksum:i9FA3E5A30EDC3C6F
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti53 – 531E → K in AAF04588. (PubMed:10796014)Curated

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AF190792 Genomic DNA. Translation: AAF04588.1.
AL591688 Genomic DNA. Translation: CAC46025.1.
RefSeqiNP_385552.1. NC_003047.1.

Genome annotation databases

EnsemblBacteriaiCAC46025; CAC46025; SMc01031.
GeneIDi1233099.
KEGGisme:SMc01031.
PATRICi23632229. VBISinMel96828_2866.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AF190792 Genomic DNA. Translation: AAF04588.1 .
AL591688 Genomic DNA. Translation: CAC46025.1 .
RefSeqi NP_385552.1. NC_003047.1.

3D structure databases

ProteinModelPortali Q9R9N4.
SMRi Q9R9N4. Positions 137-457.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 266834.SMc01031.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai CAC46025 ; CAC46025 ; SMc01031 .
GeneIDi 1233099.
KEGGi sme:SMc01031.
PATRICi 23632229. VBISinMel96828_2866.

Phylogenomic databases

eggNOGi COG0508.
HOGENOMi HOG000281450.
KOi K00162.
OMAi EISTHSF.
OrthoDBi EOG6JQH4C.

Enzyme and pathway databases

BioCyci SMEL266834:GJF6-1481-MONOMER.

Family and domain databases

Gene3Di 3.40.50.920. 1 hit.
3.40.50.970. 1 hit.
InterProi IPR003016. 2-oxoA_DH_lipoyl-BS.
IPR000089. Biotin_lipoyl.
IPR027110. PDHB.
IPR011053. Single_hybrid_motif.
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 PF00364. Biotin_lipoyl. 1 hit.
PF02779. Transket_pyr. 1 hit.
PF02780. Transketolase_C. 1 hit.
[Graphical view ]
SMARTi SM00861. Transket_pyr. 1 hit.
[Graphical view ]
SUPFAMi SSF51230. SSF51230. 1 hit.
SSF52518. SSF52518. 1 hit.
SSF52922. SSF52922. 1 hit.
PROSITEi PS50968. BIOTINYL_LIPOYL. 1 hit.
PS00189. LIPOYL. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "Symbiotic induction of pyruvate dehydrogenase genes from Sinorhizobium meliloti."
    Cabanes D., Boistard P., Batut J.
    Mol. Plant Microbe Interact. 13:483-493(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: RCR2011 / SU47.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: 1021.
  3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: 1021.

Entry informationi

Entry nameiODPB_RHIME
AccessioniPrimary (citable) accession number: Q9R9N4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 30, 2000
Last sequence update: May 30, 2000
Last modified: October 1, 2014
This is version 101 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3