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B9J7M8

- PYRF_AGRRK

UniProt

B9J7M8 - PYRF_AGRRK

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Protein

Orotidine 5'-phosphate decarboxylase

Gene

pyrF

Organism
Agrobacterium radiobacter (strain K84 / ATCC BAA-868)
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

BioCyciARAD311403:GHU8-420-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:Arad_0538
OrganismiAgrobacterium radiobacter (strain K84 / ATCC BAA-868)
Taxonomic identifieri311403 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesRhizobiaceaeRhizobium/Agrobacterium groupAgrobacteriumAgrobacterium tumefaciens complex
ProteomesiUP000001600: Chromosome 1

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 230230Orotidine 5'-phosphate decarboxylasePRO_1000164554Add
BLAST

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi311403.Arad_0538.

Structurei

3D structure databases

ProteinModelPortaliB9J7M8.
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.
OMAiHAKEPRE.
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.

B9J7M8-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MTARDRLIVG LDVPNLQEAE KVVSALGDDI LYYKIGYQLA FAGGLEFARD
60 70 80 90 100
LAKDGKKIFL DMKLLDIDNT VASGVENIVK MGMSMLTLHA YPKAMKAAVA
110 120 130 140 150
AAKGSDLCLL GVTVLTSMDE EDLIAAGYEY DPHTLVLRRA EQALLAGMGG
160 170 180 190 200
IVCSAEEASA VRKIIGPDMA LVTPGIRPAG SDKGDQKRVM TPAEGIRAGS
210 220 230
SHLVVARPIV KAADPREAAR AILAEMDAAL
Length:230
Mass (Da):24,337
Last modified:March 24, 2009 - v1
Checksum:i4D8EB81528FF0841
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000628 Genomic DNA. Translation: ACM25200.1.
RefSeqiYP_002543125.1. NC_011985.1.

Genome annotation databases

EnsemblBacteriaiACM25200; ACM25200; Arad_0538.
GeneIDi7368648.
KEGGiara:Arad_0538.
PATRICi20801521. VBIAgrRad129173_2872.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000628 Genomic DNA. Translation: ACM25200.1 .
RefSeqi YP_002543125.1. NC_011985.1.

3D structure databases

ProteinModelPortali B9J7M8.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 311403.Arad_0538.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ACM25200 ; ACM25200 ; Arad_0538 .
GeneIDi 7368648.
KEGGi ara:Arad_0538.
PATRICi 20801521. VBIAgrRad129173_2872.

Phylogenomic databases

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

Enzyme and pathway databases

UniPathwayi UPA00070 ; UER00120 .
BioCyci ARAD311403:GHU8-420-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. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K84 / ATCC BAA-868.

Entry informationi

Entry nameiPYRF_AGRRK
AccessioniPrimary (citable) accession number: B9J7M8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 28, 2009
Last sequence update: March 24, 2009
Last modified: October 1, 2014
This is version 38 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