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Protein

Dihydroorotate dehydrogenase (quinone)

Gene

pyrD

Organism
Burkholderia pseudomallei (strain 668)
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

Pathway: 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)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei69 – 691SubstrateUniRule annotation
Binding sitei89 – 891FMN; via amide nitrogenUniRule annotation
Binding sitei142 – 1421FMNUniRule annotation
Binding sitei175 – 1751FMNUniRule annotation
Binding sitei175 – 1751SubstrateUniRule annotation
Active sitei178 – 1781NucleophileUniRule annotation
Binding sitei180 – 1801SubstrateUniRule annotation
Binding sitei220 – 2201FMNUniRule annotation
Binding sitei248 – 2481FMN; via carbonyl oxygenUniRule annotation
Binding sitei271 – 2711FMN; via amide nitrogenUniRule annotation
Binding sitei300 – 3001FMN; via amide nitrogenUniRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi65 – 695FMNUniRule annotation
Nucleotide bindingi321 – 3222FMNUniRule annotation

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

BioCyciBPSE320373:GJ9C-1806-MONOMER.
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:BURPS668_1809
OrganismiBurkholderia pseudomallei (strain 668)
Taxonomic identifieri320373 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaBetaproteobacteriaBurkholderialesBurkholderiaceaeBurkholderiapseudomallei group
ProteomesiUP000002153 Componenti: Chromosome I

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)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 342342Dihydroorotate dehydrogenase (quinone)PRO_1000024163Add
BLAST

Interactioni

Subunit structurei

Monomer.UniRule annotation

Structurei

3D structure databases

ProteinModelPortaliA3N925.
SMRiA3N925. Positions 5-339.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni114 – 1185Substrate bindingUniRule annotation
Regioni249 – 2502Substrate bindingUniRule annotation

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiCOG0167.
HOGENOMiHOG000225103.
KOiK00254.
OMAiVYEGPGL.
OrthoDBiEOG65BDN8.

Family and domain databases

Gene3Di3.20.20.70. 1 hit.
HAMAPiMF_00225. DHO_dh_type2.
InterProiIPR013785. Aldolase_TIM.
IPR005720. Dihydroorotate_DH.
IPR012135. Dihydroorotate_DH_1_2.
IPR005719. Dihydroorotate_DH_2.
IPR001295. Dihydroorotate_DH_CS.
[Graphical view]
PfamiPF01180. DHO_dh. 1 hit.
[Graphical view]
PIRSFiPIRSF000164. DHO_oxidase. 1 hit.
TIGRFAMsiTIGR01036. pyrD_sub2. 1 hit.
PROSITEiPS00911. DHODEHASE_1. 1 hit.
PS00912. DHODEHASE_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

A3N925-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MFSSLYPLAR ASLFKMDAED AHHLTLRMLG AAGRTGLACA LSPRVPDAPR
60 70 80 90 100
TVMGLSFRNP VGLAAGLDKD GAAIDGFAAL GFGFIEVGTV TPRAQPGNPR
110 120 130 140 150
PRLFRLPEAD AIINRMGFNN SGVDQFVKNV QAARYRGVLG LNIGKNADTP
160 170 180 190 200
IERAADDYLY CLERVYPFAS YVTINISSPN TKNLRQLQGA GELDALLAAL
210 220 230 240 250
KDKQRRLADL HGKLVPLALK IAPDLDDEQV KEIAATLLRH DIEGVIATNT
260 270 280 290 300
TLSREAVKGL PHADEAGGLS GRPVFDASNA VIRKLRAELG DAVPIIGVGG
310 320 330 340
IFSGEDARAK LAAGAALVQL YTGFIYRGPA LVAECVKAIA RG
Length:342
Mass (Da):36,305
Last modified:April 3, 2007 - v1
Checksum:i5E7244A6476813E7
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000570 Genomic DNA. Translation: ABN82176.1.
RefSeqiWP_011851553.1. NC_009074.1.
YP_001058846.1. NC_009074.1.

Genome annotation databases

EnsemblBacteriaiABN82176; ABN82176; BURPS668_1809.
KEGGibpd:BURPS668_1809.
PATRICi19249485. VBIBurPse82117_1701.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000570 Genomic DNA. Translation: ABN82176.1.
RefSeqiWP_011851553.1. NC_009074.1.
YP_001058846.1. NC_009074.1.

3D structure databases

ProteinModelPortaliA3N925.
SMRiA3N925. Positions 5-339.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABN82176; ABN82176; BURPS668_1809.
KEGGibpd:BURPS668_1809.
PATRICi19249485. VBIBurPse82117_1701.

Phylogenomic databases

eggNOGiCOG0167.
HOGENOMiHOG000225103.
KOiK00254.
OMAiVYEGPGL.
OrthoDBiEOG65BDN8.

Enzyme and pathway databases

UniPathwayiUPA00070; UER00946.
BioCyciBPSE320373:GJ9C-1806-MONOMER.

Family and domain databases

Gene3Di3.20.20.70. 1 hit.
HAMAPiMF_00225. DHO_dh_type2.
InterProiIPR013785. Aldolase_TIM.
IPR005720. Dihydroorotate_DH.
IPR012135. Dihydroorotate_DH_1_2.
IPR005719. Dihydroorotate_DH_2.
IPR001295. Dihydroorotate_DH_CS.
[Graphical view]
PfamiPF01180. DHO_dh. 1 hit.
[Graphical view]
PIRSFiPIRSF000164. DHO_oxidase. 1 hit.
TIGRFAMsiTIGR01036. pyrD_sub2. 1 hit.
PROSITEiPS00911. DHODEHASE_1. 1 hit.
PS00912. DHODEHASE_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. DeShazer D., Woods D.E., Nierman W.C.
    Submitted (FEB-2007) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: 668.

Entry informationi

Entry nameiPYRD_BURP6
AccessioniPrimary (citable) accession number: A3N925
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: April 3, 2007
Last modified: June 24, 2015
This is version 62 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

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.