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Protein

Dihydroorotate dehydrogenase (quinone)

Gene

pyrD

Organism
Mycobacterium tuberculosis (strain ATCC 25177 / H37Ra)
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)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei70 – 701SubstrateUniRule annotation
Binding sitei90 – 901FMN; via amide nitrogenUniRule annotation
Binding sitei143 – 1431FMNUniRule annotation
Binding sitei176 – 1761FMNUniRule annotation
Binding sitei176 – 1761SubstrateUniRule annotation
Active sitei179 – 1791NucleophileUniRule annotation
Binding sitei181 – 1811SubstrateUniRule annotation
Binding sitei212 – 2121FMNUniRule annotation
Binding sitei240 – 2401FMN; via carbonyl oxygenUniRule annotation
Binding sitei264 – 2641FMN; via amide nitrogenUniRule annotation
Binding sitei293 – 2931FMN; via amide nitrogenUniRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi66 – 705FMNUniRule annotation
Nucleotide bindingi314 – 3152FMNUniRule 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

BioCyciMTUB419947:GJ8N-2221-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:MRA_2153
OrganismiMycobacterium tuberculosis (strain ATCC 25177 / H37Ra)
Taxonomic identifieri419947 [NCBI]
Taxonomic lineageiBacteriaActinobacteriaCorynebacterialesMycobacteriaceaeMycobacteriumMycobacterium tuberculosis complex
Proteomesi
  • UP000001988 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)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 357357Dihydroorotate dehydrogenase (quinone)PRO_1000024186Add
BLAST

Interactioni

Subunit structurei

Monomer.UniRule annotation

Protein-protein interaction databases

STRINGi419947.MtubH3_010100007426.

Structurei

3D structure databases

ProteinModelPortaliA5U4G5.
SMRiA5U4G5. Positions 2-328.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni115 – 1195Substrate bindingUniRule annotation
Regioni241 – 2422Substrate bindingUniRule annotation

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiCOG0167. LUCA.
HOGENOMiHOG000225103.
KOiK00254.
OMAiERIKMGA.
OrthoDBiEOG65BDN8.

Family and domain databases

Gene3Di3.20.20.70. 1 hit.
HAMAPiMF_00225. DHO_dh_type2.
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.

A5U4G5-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MYPLVRRLLF LIPPEHAHKL VFAVLRGVAA VAPVRRLLRR LLGPTDPVLA
60 70 80 90 100
STVFGVRFPA PLGLAAGFDK DGTALSSWGA MGFGYAEIGT VTAHPQPGNP
110 120 130 140 150
APRLFRLADD RALLNRMGFN NHGARALAIR LARHRPEIPI GVNIGKTKKT
160 170 180 190 200
PAGDAVNDYR ASARMVGPLA SYLVVNVSSP NTPGLRDLQA VESLRPILSA
210 220 230 240 250
VRAETSTPVL VKIAPDLSDS DLDDIADLAV ELDLAGIVAT NTTVSRDGLT
260 270 280 290 300
TPGVDRLGPG GISGPPLAQR AVQVLRRLYD RVGDRLALIS VGGIETADDA
310 320 330 340 350
WERITAGASL LQGYTGFIYG GERWAKDIHE GIARRLHDGG FGSLHEAVGS

ARRRQPS
Length:357
Mass (Da):37,999
Last modified:July 10, 2007 - v1
Checksum:i3D9D107DD9B4FCB6
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000611 Genomic DNA. Translation: ABQ73915.1.
RefSeqiWP_003411116.1. NC_009525.1.

Genome annotation databases

EnsemblBacteriaiABQ73915; ABQ73915; MRA_2153.
KEGGimra:MRA_2153.
PATRICi18144431. VBIMycTub106795_2418.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000611 Genomic DNA. Translation: ABQ73915.1.
RefSeqiWP_003411116.1. NC_009525.1.

3D structure databases

ProteinModelPortaliA5U4G5.
SMRiA5U4G5. Positions 2-328.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi419947.MtubH3_010100007426.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABQ73915; ABQ73915; MRA_2153.
KEGGimra:MRA_2153.
PATRICi18144431. VBIMycTub106795_2418.

Phylogenomic databases

eggNOGiCOG0167. LUCA.
HOGENOMiHOG000225103.
KOiK00254.
OMAiERIKMGA.
OrthoDBiEOG65BDN8.

Enzyme and pathway databases

UniPathwayiUPA00070; UER00946.
BioCyciMTUB419947:GJ8N-2221-MONOMER.

Family and domain databases

Gene3Di3.20.20.70. 1 hit.
HAMAPiMF_00225. DHO_dh_type2.
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...

Publicationsi

  1. "Genetic basis of virulence attenuation revealed by comparative genomic analysis of Mycobacterium tuberculosis strain H37Ra versus H37Rv."
    Zheng H., Lu L., Wang B., Pu S., Zhang X., Zhu G., Shi W., Zhang L., Wang H., Wang S., Zhao G., Zhang Y.
    PLoS ONE 3:E2375-E2375(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 25177 / H37Ra.

Entry informationi

Entry nameiPYRD_MYCTA
AccessioniPrimary (citable) accession number: A5U4G5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: July 10, 2007
Last modified: November 11, 2015
This is version 65 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.