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Protein

Dihydroorotate dehydrogenase (quinone)

Gene

pyrD

Organism
Bradyrhizobium sp. (strain BTAi1 / ATCC BAA-1182)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

Catalyzes the conversion of dihydroorotate to orotate with quinone as electron acceptor.UniRule annotation

Catalytic activityi

(S)-dihydroorotate + a quinone = orotate + a quinol.UniRule annotation

Cofactori

FMNUniRule annotationNote: Binds 1 FMN per subunit.UniRule annotation

Pathwayi: UMP biosynthesis via de novo pathway

This protein is involved in step 1 of the subpathway that synthesizes orotate from (S)-dihydroorotate (quinone route).UniRule annotation
Proteins known to be involved in this subpathway in this organism are:
  1. Dihydroorotate dehydrogenase (quinone) (pyrD)
This subpathway is part of the pathway UMP biosynthesis via de novo pathway, which is itself part of Pyrimidine metabolism.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes orotate from (S)-dihydroorotate (quinone route), the pathway UMP biosynthesis via de novo pathway and in Pyrimidine metabolism.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei65SubstrateUniRule annotation1
Binding sitei85FMN; via amide nitrogenUniRule annotation1
Binding sitei139FMNUniRule annotation1
Binding sitei170FMNUniRule annotation1
Binding sitei170SubstrateUniRule annotation1
Active sitei173NucleophileUniRule annotation1
Binding sitei175SubstrateUniRule annotation1
Binding sitei214FMNUniRule annotation1
Binding sitei242FMN; via carbonyl oxygenUniRule annotation1
Binding sitei266FMN; via amide nitrogenUniRule annotation1
Binding sitei295FMN; via amide nitrogenUniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi61 – 65FMNUniRule annotation5
Nucleotide bindingi316 – 317FMNUniRule annotation2

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Biological processi

Pyrimidine biosynthesis

Keywords - Ligandi

Flavoprotein, FMN

Enzyme and pathway databases

UniPathwayiUPA00070; UER00946.

Names & Taxonomyi

Protein namesi
Recommended name:
Dihydroorotate dehydrogenase (quinone)UniRule annotation (EC:1.3.5.2UniRule annotation)
Alternative name(s):
DHOdehaseUniRule annotation
Short name:
DHODUniRule annotation
Short name:
DHODaseUniRule annotation
Dihydroorotate oxidaseUniRule annotation
Gene namesi
Name:pyrDUniRule annotation
Ordered Locus Names:BBta_0793
OrganismiBradyrhizobium sp. (strain BTAi1 / ATCC BAA-1182)
Taxonomic identifieri288000 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesBradyrhizobiaceaeBradyrhizobium
Proteomesi
  • UP000000246 Componenti: Chromosome

Subcellular locationi

  • Cell membrane UniRule annotation; Peripheral membrane protein UniRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cell membrane, Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_10001002501 – 364Dihydroorotate dehydrogenase (quinone)Add BLAST364

Interactioni

Subunit structurei

Monomer.UniRule annotation

Protein-protein interaction databases

STRINGi288000.BBta_0793.

Structurei

3D structure databases

ProteinModelPortaliA5EA61.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni110 – 114Substrate bindingUniRule annotation5
Regioni243 – 244Substrate bindingUniRule annotation2

Sequence similaritiesi

Belongs to the dihydroorotate dehydrogenase family. Type 2 subfamily.UniRule annotation

Phylogenomic databases

eggNOGiENOG4107QYT. Bacteria.
COG0167. LUCA.
HOGENOMiHOG000225103.
KOiK00254.
OMAiERIKMGA.
OrthoDBiPOG091H018H.

Family and domain databases

CDDicd04738. DHOD_2_like. 1 hit.
Gene3Di3.20.20.70. 1 hit.
HAMAPiMF_00225. DHO_dh_type2. 1 hit.
InterProiIPR013785. Aldolase_TIM.
IPR005720. Dihydroorotate_DH.
IPR005719. Dihydroorotate_DH_2.
IPR001295. Dihydroorotate_DH_CS.
[Graphical view]
PfamiPF01180. DHO_dh. 1 hit.
[Graphical view]
TIGRFAMsiTIGR01036. pyrD_sub2. 1 hit.
PROSITEiPS00911. DHODEHASE_1. 1 hit.
PS00912. DHODEHASE_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

A5EA61-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MIRAFDQLSL PLLRWLDAED AHRLAIQGLK LLPAIKPRPD DAKLAVRAFG
60 70 80 90 100
LNFPNPVGMA AGFDKNAEVP DALLRLGFGF VEIGSVTPRP QSGNPRPRLF
110 120 130 140 150
RLERDEAVVN RMGFNNDGAE IVLRRLAGRA NQGGIVGVNV GANKDSADRV
160 170 180 190 200
ADYVRLIETF APVASYFTVN ISSPNTPGLR NLQQAAQLNE LLSKVLEARD
210 220 230 240 250
RVRRKAGDTP VLLKIAPDLS LAELDDVVHV ARSRGVDGMI VSNTTLARPN
260 270 280 290 300
SLREQLRAKE QGGLSGRPLF RLSTRMVAET FVRVEGAFPL IGVGGIDSGG
310 320 330 340 350
AALTKIRAGA SLIQLYSSLV YKGLGLVESI KADLTSTLLR TGRDSLSEIV
360
GADAATITAE DWPV
Length:364
Mass (Da):39,171
Last modified:June 12, 2007 - v1
Checksum:iBB3B8CBBC5C84A7A
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000494 Genomic DNA. Translation: ABQ33055.1.
RefSeqiWP_012041106.1. NC_009485.1.

Genome annotation databases

EnsemblBacteriaiABQ33055; ABQ33055; BBta_0793.
KEGGibbt:BBta_0793.
PATRICi21202564. VBIBraSp29847_0979.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000494 Genomic DNA. Translation: ABQ33055.1.
RefSeqiWP_012041106.1. NC_009485.1.

3D structure databases

ProteinModelPortaliA5EA61.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi288000.BBta_0793.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABQ33055; ABQ33055; BBta_0793.
KEGGibbt:BBta_0793.
PATRICi21202564. VBIBraSp29847_0979.

Phylogenomic databases

eggNOGiENOG4107QYT. Bacteria.
COG0167. LUCA.
HOGENOMiHOG000225103.
KOiK00254.
OMAiERIKMGA.
OrthoDBiPOG091H018H.

Enzyme and pathway databases

UniPathwayiUPA00070; UER00946.

Family and domain databases

CDDicd04738. DHOD_2_like. 1 hit.
Gene3Di3.20.20.70. 1 hit.
HAMAPiMF_00225. DHO_dh_type2. 1 hit.
InterProiIPR013785. Aldolase_TIM.
IPR005720. Dihydroorotate_DH.
IPR005719. Dihydroorotate_DH_2.
IPR001295. Dihydroorotate_DH_CS.
[Graphical view]
PfamiPF01180. DHO_dh. 1 hit.
[Graphical view]
TIGRFAMsiTIGR01036. pyrD_sub2. 1 hit.
PROSITEiPS00911. DHODEHASE_1. 1 hit.
PS00912. DHODEHASE_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiPYRD_BRASB
AccessioniPrimary (citable) accession number: A5EA61
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 24, 2009
Last sequence update: June 12, 2007
Last modified: November 2, 2016
This is version 68 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. SIMILARITY comments
    Index of protein domains and families

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 one 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.