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B5ZYG6

- PYRF_RHILW

UniProt

B5ZYG6 - PYRF_RHILW

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Protein

Orotidine 5'-phosphate decarboxylase

Gene

pyrF

Organism
Rhizobium leguminosarum bv. trifolii (strain WSM2304)
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 sitei12 – 121SubstrateUniRule annotation
Binding sitei34 – 341SubstrateUniRule annotation
Active sitei63 – 631Proton donorUniRule annotation
Binding sitei116 – 1161SubstrateUniRule annotation
Binding sitei177 – 1771SubstrateUniRule annotation
Binding sitei186 – 1861SubstrateUniRule annotation
Binding sitei207 – 2071SubstrateUniRule 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

BioCyciRETL1328306-WGS:GSTH-318-MONOMER.
RLEG395492:GJB3-4391-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:Rleg2_4325
OrganismiRhizobium leguminosarum bv. trifolii (strain WSM2304)
Taxonomic identifieri395492 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesRhizobiaceaeRhizobium/Agrobacterium groupRhizobium
ProteomesiUP000008330: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 235235Orotidine 5'-phosphate decarboxylasePRO_1000138551Add
BLAST

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi395492.Rleg2_4325.

Structurei

3D structure databases

ProteinModelPortaliB5ZYG6.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni61 – 7010Substrate bindingUniRule annotation

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiCOG0284.
HOGENOMiHOG000226070.
KOiK01591.
OMAiRPITQSA.
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.

B5ZYG6-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MDARERLIVG LDVPTIGEAE KLVSTLGDDI LFYKIGYQLV FAGGLEFARD
60 70 80 90 100
LAASGKKIFL DMKLLDIDNT VASGVENIAK MGMSMLTLHA YPKAMKAAVE
110 120 130 140 150
AAAGSGLCLL GVTVLTSMDA EDLADAGYSQ DPHSLVLRRA GQARAAGMGG
160 170 180 190 200
IVCSAAEAAE VREIVGPDMA IVTPGIRPTG SDHGDQKRVM TPFDALKAGA
210 220 230
THLVVARPIV KAPDPRDAAR AVLNEMVGAL WPANR
Length:235
Mass (Da):24,641
Last modified:November 25, 2008 - v1
Checksum:i578900E2369E8A0F
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001191 Genomic DNA. Translation: ACI57583.1.
RefSeqiYP_002283809.1. NC_011369.1.

Genome annotation databases

EnsemblBacteriaiACI57583; ACI57583; Rleg2_4325.
GeneIDi6983099.
KEGGirlt:Rleg2_4325.
PATRICi23132974. VBIRhiLeg95088_6277.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001191 Genomic DNA. Translation: ACI57583.1 .
RefSeqi YP_002283809.1. NC_011369.1.

3D structure databases

ProteinModelPortali B5ZYG6.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 395492.Rleg2_4325.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ACI57583 ; ACI57583 ; Rleg2_4325 .
GeneIDi 6983099.
KEGGi rlt:Rleg2_4325.
PATRICi 23132974. VBIRhiLeg95088_6277.

Phylogenomic databases

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

Enzyme and pathway databases

UniPathwayi UPA00070 ; UER00120 .
BioCyci RETL1328306-WGS:GSTH-318-MONOMER.
RLEG395492:GJB3-4391-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.
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. "Complete sequence of chromosome of Rhizobium leguminosarum bv. trifolii WSM2304."
    US DOE Joint Genome Institute
    Lucas S., Copeland A., Lapidus A., Glavina del Rio T., Dalin E., Tice H., Pitluck S., Chain P., Malfatti S., Shin M., Vergez L., Lang D., Larimer F., Land M., Hauser L., Kyrpides N., Mikhailova N., Yates R.
    , Ardley J., Tiwari R.P., O'Hara G., Howieson J., Brau L., Reeve W.
    Submitted (OCT-2008) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: WSM2304.

Entry informationi

Entry nameiPYRF_RHILW
AccessioniPrimary (citable) accession number: B5ZYG6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 14, 2009
Last sequence update: November 25, 2008
Last modified: November 26, 2014
This is version 41 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