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Q3SRG9

- PYRF_NITWN

UniProt

Q3SRG9 - PYRF_NITWN

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Protein

Orotidine 5'-phosphate decarboxylase

Gene

pyrF

Organism
Nitrobacter winogradskyi (strain Nb-255 / ATCC 25391)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi

Functioni

Catalyzes the decarboxylation of orotidine 5'-monophosphate (OMP) to uridine 5'-monophosphate (UMP).UniRule annotation

Catalytic activityi

Orotidine 5'-phosphate = UMP + CO2.UniRule annotation

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei19 – 191SubstrateUniRule annotation
Binding sitei41 – 411SubstrateUniRule annotation
Active sitei70 – 701Proton donorUniRule annotation
Binding sitei123 – 1231SubstrateUniRule annotation
Binding sitei184 – 1841SubstrateUniRule annotation
Binding sitei193 – 1931SubstrateUniRule annotation
Binding sitei213 – 2131Substrate; via amide nitrogenUniRule annotation
Binding sitei214 – 2141SubstrateUniRule annotation

GO - Molecular functioni

  1. orotidine-5'-phosphate decarboxylase 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

Decarboxylase, Lyase

Keywords - Biological processi

Pyrimidine biosynthesis

Enzyme and pathway databases

BioCyciNWIN323098:GJEG-1897-MONOMER.
UniPathwayiUPA00070; UER00120.

Names & Taxonomyi

Protein namesi
Recommended name:
Orotidine 5'-phosphate decarboxylaseUniRule annotation (EC:4.1.1.23UniRule annotation)
Alternative name(s):
OMP decarboxylaseUniRule annotation
Short name:
OMPDCaseUniRule annotation
Short name:
OMPdecaseUniRule annotation
Gene namesi
Name:pyrFUniRule annotation
Ordered Locus Names:Nwi_1862
OrganismiNitrobacter winogradskyi (strain Nb-255 / ATCC 25391)
Taxonomic identifieri323098 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesBradyrhizobiaceaeNitrobacter
ProteomesiUP000002531: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 240240Orotidine 5'-phosphate decarboxylasePRO_0000241879Add
BLAST

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi323098.Nwi_1862.

Structurei

3D structure databases

ProteinModelPortaliQ3SRG9.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni68 – 7710Substrate bindingUniRule annotation

Sequence similaritiesi

Belongs to the OMP decarboxylase family. Type 1 subfamily.UniRule annotation

Phylogenomic databases

eggNOGiCOG0284.
HOGENOMiHOG000226070.
KOiK01591.
OMAiHAKEPRE.
OrthoDBiEOG6N6815.

Family and domain databases

Gene3Di3.20.20.70. 1 hit.
HAMAPiMF_01200_B. OMPdecase_type1_B.
InterProiIPR013785. Aldolase_TIM.
IPR014732. OMPdecase.
IPR001754. OMPdeCOase_dom.
IPR011060. RibuloseP-bd_barrel.
[Graphical view]
PfamiPF00215. OMPdecase. 1 hit.
[Graphical view]
SMARTiSM00934. OMPdecase. 1 hit.
[Graphical view]
SUPFAMiSSF51366. SSF51366. 1 hit.
TIGRFAMsiTIGR01740. pyrF. 1 hit.

Sequencei

Sequence statusi: Complete.

Q3SRG9 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MTGSHDSDLA REKLIVALDY WNIEDARKLV RDLGDGVSFY KVGLGLQLVG
60 70 80 90 100
GNEFARELIA EGKRVFLDYK YYDIEETVQR AVAQAAELKI AFLTVHGVTS
110 120 130 140 150
IMKAAVAGRG NSDMKILGVT VLTSMDAEDI KEMGFECSVE DLVVARARRA
160 170 180 190 200
LEVGVDGVVA SALEAAELRK HTNNKLMIVS PGIRPSGGAR HDQKRVATPF
210 220 230 240
EAMRAGADYL VLGRPIYAAD NPKAAAQAII REMADALRPD
Length:240
Mass (Da):26,061
Last modified:October 11, 2005 - v1
Checksum:i2860876D5CA750B1
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000115 Genomic DNA. Translation: ABA05122.1.
RefSeqiWP_011315118.1. NC_007406.1.
YP_318474.1. NC_007406.1.

Genome annotation databases

EnsemblBacteriaiABA05122; ABA05122; Nwi_1862.
GeneIDi3674511.
KEGGinwi:Nwi_1862.
PATRICi22700536. VBINitWin102302_2089.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000115 Genomic DNA. Translation: ABA05122.1 .
RefSeqi WP_011315118.1. NC_007406.1.
YP_318474.1. NC_007406.1.

3D structure databases

ProteinModelPortali Q3SRG9.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 323098.Nwi_1862.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ABA05122 ; ABA05122 ; Nwi_1862 .
GeneIDi 3674511.
KEGGi nwi:Nwi_1862.
PATRICi 22700536. VBINitWin102302_2089.

Phylogenomic databases

eggNOGi COG0284.
HOGENOMi HOG000226070.
KOi K01591.
OMAi HAKEPRE.
OrthoDBi EOG6N6815.

Enzyme and pathway databases

UniPathwayi UPA00070 ; UER00120 .
BioCyci NWIN323098:GJEG-1897-MONOMER.

Family and domain databases

Gene3Di 3.20.20.70. 1 hit.
HAMAPi MF_01200_B. OMPdecase_type1_B.
InterProi IPR013785. Aldolase_TIM.
IPR014732. OMPdecase.
IPR001754. OMPdeCOase_dom.
IPR011060. RibuloseP-bd_barrel.
[Graphical view ]
Pfami PF00215. OMPdecase. 1 hit.
[Graphical view ]
SMARTi SM00934. OMPdecase. 1 hit.
[Graphical view ]
SUPFAMi SSF51366. SSF51366. 1 hit.
TIGRFAMsi TIGR01740. pyrF. 1 hit.
ProtoNeti Search...

Publicationsi

  1. "Genome sequence of the chemolithoautotrophic nitrite-oxidizing bacterium Nitrobacter winogradskyi Nb-255."
    Starkenburg S.R., Chain P.S.G., Sayavedra-Soto L.A., Hauser L., Land M.L., Larimer F.W., Malfatti S.A., Klotz M.G., Bottomley P.J., Arp D.J., Hickey W.J.
    Appl. Environ. Microbiol. 72:2050-2063(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: Nb-255 / ATCC 25391.

Entry informationi

Entry nameiPYRF_NITWN
AccessioniPrimary (citable) accession number: Q3SRG9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 27, 2006
Last sequence update: October 11, 2005
Last modified: October 29, 2014
This is version 61 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

External Data

Dasty 3