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Protein

Dihydroorotate dehydrogenase (quinone)

Gene

pyrD

Organism
Vibrio vulnificus (strain YJ016)
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

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei66 – 661SubstrateUniRule annotation
Binding sitei86 – 861FMN; via amide nitrogenUniRule annotation
Binding sitei139 – 1391FMNUniRule annotation
Binding sitei172 – 1721FMNUniRule annotation
Binding sitei172 – 1721SubstrateUniRule annotation
Active sitei175 – 1751NucleophileUniRule annotation
Binding sitei177 – 1771SubstrateUniRule annotation
Binding sitei217 – 2171FMNUniRule annotation
Binding sitei245 – 2451FMN; via carbonyl oxygenUniRule annotation
Binding sitei268 – 2681FMN; via amide nitrogenUniRule annotation
Binding sitei297 – 2971FMN; via amide nitrogenUniRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi62 – 665FMNUniRule annotation
Nucleotide bindingi318 – 3192FMNUniRule annotation

GO - Molecular functioni

  1. dihydroorotate dehydrogenase activity Source: UniProtKB-HAMAP

GO - Biological processi

  1. 'de novo' pyrimidine nucleobase biosynthetic process Source: InterPro
  2. 'de novo' UMP biosynthetic process Source: UniProtKB-UniPathway
Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Biological processi

Pyrimidine biosynthesis

Keywords - Ligandi

Flavoprotein, FMN

Enzyme and pathway databases

BioCyciVVUL196600:GJ9W-1711-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:VV1654
OrganismiVibrio vulnificus (strain YJ016)
Taxonomic identifieri196600 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaVibrionalesVibrionaceaeVibrio
ProteomesiUP000002675 Componenti: Chromosome I

Subcellular locationi

  1. Cell membrane UniRule annotation; Peripheral membrane protein UniRule annotation

GO - Cellular componenti

  1. plasma membrane Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Cell membrane, Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 336336Dihydroorotate dehydrogenase (quinone)PRO_0000148488Add
BLAST

Interactioni

Subunit structurei

Monomer.UniRule annotation

Protein-protein interaction databases

STRINGi196600.VV1654.

Structurei

3D structure databases

ProteinModelPortaliQ7MKX3.
SMRiQ7MKX3. Positions 1-336.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni111 – 1155Substrate bindingUniRule annotation
Regioni246 – 2472Substrate 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.
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.

Q7MKX3-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MLYRLARAGF FQLDAEKAHD LAIQNFKRFT GTPIDLFYRQ QLPNRPVECM
60 70 80 90 100
GLTFRNPVGL AAGLDKNGEC IEAFDAMGFG FVEIGTVTPR AQSGNDKPRL
110 120 130 140 150
FRLVGAEGII NRMGFNNLGV DNLIENVKKA KYSCVLGINI GKNKDTPIEK
160 170 180 190 200
GAEDYLICME KVYEYAGYIA VNISSPNTPG LRTLQYGEAL DELLVELKRK
210 220 230 240 250
QAELEEKHGK YVPLALKIAP DLTDDEISQI CQSLINNKID GVIATNTTLD
260 270 280 290 300
RTMVEGMKYA QEAGGLSGRP LQSRSTEVVR LLRKELQGNI PIIGVGGVDS
310 320 330
YVAAKEKMLA GADLVQVYSG FIYHGPGLVR DIVKNL
Length:336
Mass (Da):36,979
Last modified:December 15, 2003 - v1
Checksum:i8B105A8C1F309AEF
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000037 Genomic DNA. Translation: BAC94418.1.
RefSeqiNP_934447.1. NC_005139.1.

Genome annotation databases

EnsemblBacteriaiBAC94418; BAC94418; BAC94418.
KEGGivvy:VV1654.
PATRICi20170094. VBIVibVul40472_1632.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000037 Genomic DNA. Translation: BAC94418.1.
RefSeqiNP_934447.1. NC_005139.1.

3D structure databases

ProteinModelPortaliQ7MKX3.
SMRiQ7MKX3. Positions 1-336.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi196600.VV1654.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiBAC94418; BAC94418; BAC94418.
KEGGivvy:VV1654.
PATRICi20170094. VBIVibVul40472_1632.

Phylogenomic databases

eggNOGiCOG0167.
HOGENOMiHOG000225103.
KOiK00254.
OMAiVYEGPGL.
OrthoDBiEOG65BDN8.

Enzyme and pathway databases

UniPathwayiUPA00070; UER00946.
BioCyciVVUL196600:GJ9W-1711-MONOMER.

Family and domain databases

Gene3Di3.20.20.70. 1 hit.
HAMAPiMF_00225. DHO_dh_type2.
InterProiIPR013785. Aldolase_TIM.
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. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: YJ016.

Entry informationi

Entry nameiPYRD_VIBVY
AccessioniPrimary (citable) accession number: Q7MKX3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 15, 2005
Last sequence update: December 15, 2003
Last modified: April 29, 2015
This is version 89 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.