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Q5LND3

- PYRF_RUEPO

UniProt

Q5LND3 - PYRF_RUEPO

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Protein

Orotidine 5'-phosphate decarboxylase

Gene

pyrF

Organism
Ruegeria pomeroyi (strain ATCC 700808 / DSM 15171 / DSS-3) (Silicibacter pomeroyi)
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 sitei16 – 161SubstrateUniRule annotation
Binding sitei38 – 381SubstrateUniRule annotation
Active sitei68 – 681Proton donorUniRule annotation
Binding sitei121 – 1211SubstrateUniRule 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

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:SPO3278
OrganismiRuegeria pomeroyi (strain ATCC 700808 / DSM 15171 / DSS-3) (Silicibacter pomeroyi)
Taxonomic identifieri246200 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhodobacteralesRhodobacteraceaeRuegeria
ProteomesiUP000001023: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 244244Orotidine 5'-phosphate decarboxylasePRO_0000241908Add
BLAST

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi246200.SPO3278.

Structurei

3D structure databases

ProteinModelPortaliQ5LND3.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni66 – 7510Substrate bindingUniRule annotation

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiCOG0284.
HOGENOMiHOG000226070.
KOiK01591.
OMAiFMELRIA.
OrthoDBiEOG6N6815.

Family and domain databases

Gene3Di3.20.20.70. 1 hit.
HAMAPiMF_01200_B. OMPdecase_type1_B.
InterProiIPR013785. Aldolase_TIM.
IPR014732. OMPdecase.
IPR018089. OMPdecase_AS.
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.
PROSITEiPS00156. OMPDECASE. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q5LND3-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MTDRMLADDR LIVALDVPNA VAGLALAERL GDAVSFYKIG LGMLTGGGLA
60 70 80 90 100
LANELKQEHG KRIFLDMKLF DIGNTVEAAV RGLSQFDLDF LTVHGDPHVV
110 120 130 140 150
RAAKEGAAGK DLKILAVTIL TSLNRDDLDA SLIKPGDVHD LVLERAARAF
160 170 180 190 200
EAGADGVIAS PQEAAAIRAL PEAAGRLIVT PGIRPAGADL GDQKRVATPA
210 220 230 240
NAIADGVDHI VVGRPVVHAP DPRAAALSIL AEMTSPQAVA PNRS
Length:244
Mass (Da):25,401
Last modified:February 1, 2005 - v1
Checksum:i86E394EE56788CDD
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000031 Genomic DNA. Translation: AAV96507.1.
RefSeqiYP_168475.2. NC_003911.12.

Genome annotation databases

EnsemblBacteriaiAAV96507; AAV96507; SPO3278.
GeneIDi3195326.
KEGGisil:SPO3278.
PATRICi23379999. VBIRuePom114501_3337.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000031 Genomic DNA. Translation: AAV96507.1 .
RefSeqi YP_168475.2. NC_003911.12.

3D structure databases

ProteinModelPortali Q5LND3.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 246200.SPO3278.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AAV96507 ; AAV96507 ; SPO3278 .
GeneIDi 3195326.
KEGGi sil:SPO3278.
PATRICi 23379999. VBIRuePom114501_3337.

Phylogenomic databases

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

Enzyme and pathway databases

UniPathwayi UPA00070 ; UER00120 .

Family and domain databases

Gene3Di 3.20.20.70. 1 hit.
HAMAPi MF_01200_B. OMPdecase_type1_B.
InterProi IPR013785. Aldolase_TIM.
IPR014732. OMPdecase.
IPR018089. OMPdecase_AS.
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.
PROSITEi PS00156. OMPDECASE. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 700808 / DSM 15171 / DSS-3.

Entry informationi

Entry nameiPYRF_RUEPO
AccessioniPrimary (citable) accession number: Q5LND3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 27, 2006
Last sequence update: February 1, 2005
Last modified: October 1, 2014
This is version 64 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