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B8IFW8

- PYRF_METNO

UniProt

B8IFW8 - PYRF_METNO

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Protein

Orotidine 5'-phosphate decarboxylase

Gene

pyrF

Organism
Methylobacterium nodulans (strain ORS2060 / LMG 21967)
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 sitei67 – 671Proton 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

BioCyciMNOD460265:GCZK-4862-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:Mnod_4816
OrganismiMethylobacterium nodulans (strain ORS2060 / LMG 21967)
Taxonomic identifieri460265 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesMethylobacteriaceaeMethylobacterium
ProteomesiUP000008207: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 236236Orotidine 5'-phosphate decarboxylasePRO_1000164577Add
BLAST

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi460265.Mnod_4816.

Structurei

3D structure databases

ProteinModelPortaliB8IFW8.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni65 – 7410Substrate 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.

B8IFW8-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MPDTPSPRDR LIVALDMATT DEAERLIDRL GDAASFYKIG YRLGYAGGLA
60 70 80 90 100
LAERLVKGGA KVFLDLKLHD IGNTVEEGVQ SLARLGAHLL TVHAYPQTMR
110 120 130 140 150
AAVRGRDSVP GSALRLLAVT VLTSYDDADA REAGYALSVS ELVAIRALAA
160 170 180 190 200
REIGIDGIVC AATEAAQVRE IVGPDGLIVT PGIRPAGSDT GDQKRVVTPA
210 220 230
AAIRAGVDYI VVGRPITAAA DPRAVAQSIV AEIAAA
Length:236
Mass (Da):24,561
Last modified:March 3, 2009 - v1
Checksum:i8742B680B2B5647A
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001349 Genomic DNA. Translation: ACL59678.1.
RefSeqiYP_002499981.1. NC_011894.1.

Genome annotation databases

EnsemblBacteriaiACL59678; ACL59678; Mnod_4816.
GeneIDi7307892.
KEGGimno:Mnod_4816.
PATRICi22551472. VBIMetNod76414_5440.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001349 Genomic DNA. Translation: ACL59678.1 .
RefSeqi YP_002499981.1. NC_011894.1.

3D structure databases

ProteinModelPortali B8IFW8.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 460265.Mnod_4816.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ACL59678 ; ACL59678 ; Mnod_4816 .
GeneIDi 7307892.
KEGGi mno:Mnod_4816.
PATRICi 22551472. VBIMetNod76414_5440.

Phylogenomic databases

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

Enzyme and pathway databases

UniPathwayi UPA00070 ; UER00120 .
BioCyci MNOD460265:GCZK-4862-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 Methylobacterium nodulans ORS 2060."
    US DOE Joint Genome Institute
    Lucas S., Copeland A., Lapidus A., Glavina del Rio T., Dalin E., Tice H., Bruce D., Goodwin L., Pitluck S., Sims D., Brettin T., Detter J.C., Han C., Larimer F., Land M., Hauser L., Kyrpides N., Ivanova N., Marx C.J., Richardson P.
    Submitted (JAN-2009) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ORS2060 / LMG 21967.

Entry informationi

Entry nameiPYRF_METNO
AccessioniPrimary (citable) accession number: B8IFW8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 28, 2009
Last sequence update: March 3, 2009
Last modified: October 1, 2014
This is version 39 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