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Protein

Dihydroorotate dehydrogenase (quinone)

Gene

pyrD

Organism
Rhodospirillum rubrum (strain ATCC 11170 / ATH 1.1.1 / DSM 467 / LMG 4362 / NCIB 8255 / S1)
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 sitei138FMNUniRule annotation1
Binding sitei169FMNUniRule annotation1
Binding sitei169SubstrateUniRule annotation1
Active sitei172NucleophileUniRule annotation1
Binding sitei174SubstrateUniRule annotation1
Binding sitei212FMNUniRule annotation1
Binding sitei240FMN; via carbonyl oxygenUniRule annotation1
Binding sitei263FMN; via amide nitrogenUniRule annotation1
Binding sitei292FMN; via amide nitrogenUniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi61 – 65FMNUniRule annotation5
Nucleotide bindingi313 – 314FMNUniRule 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:Rru_A0514
OrganismiRhodospirillum rubrum (strain ATCC 11170 / ATH 1.1.1 / DSM 467 / LMG 4362 / NCIB 8255 / S1)
Taxonomic identifieri269796 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhodospirillalesRhodospirillaceaeRhodospirillum
Proteomesi
  • UP000001929 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_00003364871 – 367Dihydroorotate dehydrogenase (quinone)Add BLAST367

Interactioni

Subunit structurei

Monomer.UniRule annotation

Protein-protein interaction databases

STRINGi269796.Rru_A0514.

Structurei

3D structure databases

ProteinModelPortaliQ2RX27.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni110 – 114Substrate bindingUniRule annotation5
Regioni241 – 242Substrate 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.

Q2RX27-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MADWYRLAWP LICGLDPERA HHLAIRALAL GLAGHDRAAD DPVLACSLWG
60 70 80 90 100
RRFANPLGLA AGFDKNGEVA DALFDLGFGF VEVGTVTPRP QAGNPRPRLF
110 120 130 140 150
RLTQDRAVIN RMGFNNQGME AMAARFVRAR PRGVLGINLG KNKTTEDAAG
160 170 180 190 200
DYEAGIAKLA PLADYLVINV SSPNTPGLRA LQGREPLSLL IARARAALDA
210 220 230 240 250
ACPGLRPPLL LKVAPDLTDE DMADIAEVAL GGGLDGLICT NTTIARPKSL
260 270 280 290 300
VSDHAGETGG LSGLPLRYRA RQVIARLYGL TKGALPLIGV GGIGDGAEAY
310 320 330 340 350
ARIRAGASLI QIYSALVYEG PGLVGRIKRD LAQRLRADGF ASVAEAVGAD
360
HRDPKGASGK LAPRSPL
Length:367
Mass (Da):38,648
Last modified:January 24, 2006 - v1
Checksum:iA7BD19D797BDAAEB
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000230 Genomic DNA. Translation: ABC21318.1.
RefSeqiWP_011388272.1. NC_007643.1.
YP_425605.1. NC_007643.1.

Genome annotation databases

EnsemblBacteriaiABC21318; ABC21318; Rru_A0514.
GeneIDi3834212.
KEGGirru:Rru_A0514.
PATRICi23324603. VBIRhoRub82919_0568.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000230 Genomic DNA. Translation: ABC21318.1.
RefSeqiWP_011388272.1. NC_007643.1.
YP_425605.1. NC_007643.1.

3D structure databases

ProteinModelPortaliQ2RX27.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi269796.Rru_A0514.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABC21318; ABC21318; Rru_A0514.
GeneIDi3834212.
KEGGirru:Rru_A0514.
PATRICi23324603. VBIRhoRub82919_0568.

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_RHORT
AccessioniPrimary (citable) accession number: Q2RX27
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 20, 2008
Last sequence update: January 24, 2006
Last modified: November 2, 2016
This is version 80 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, Reference 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.