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Q39VY5

- PYRF_GEOMG

UniProt

Q39VY5 - PYRF_GEOMG

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Protein

Orotidine 5'-phosphate decarboxylase

Gene

pyrF

Organism
Geobacter metallireducens (strain GS-15 / ATCC 53774 / DSM 7210)
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 sitei15 – 151SubstrateUniRule annotation
Binding sitei37 – 371SubstrateUniRule annotation
Active sitei66 – 661Proton donorUniRule annotation
Binding sitei126 – 1261SubstrateUniRule annotation
Binding sitei187 – 1871SubstrateUniRule annotation
Binding sitei196 – 1961SubstrateUniRule annotation
Binding sitei216 – 2161Substrate; via amide nitrogenUniRule annotation
Binding sitei217 – 2171SubstrateUniRule 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

BioCyciGMET269799:GHNY-1373-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:Gmet_1355
OrganismiGeobacter metallireducens (strain GS-15 / ATCC 53774 / DSM 7210)
Taxonomic identifieri269799 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaDeltaproteobacteriaDesulfuromonadalesGeobacteraceaeGeobacter
ProteomesiUP000007073: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 239239Orotidine 5'-phosphate decarboxylasePRO_0000241861Add
BLAST

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi269799.Gmet_1355.

Structurei

3D structure databases

ProteinModelPortaliQ39VY5.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni64 – 7310Substrate 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.

Q39VY5-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MTRDQAREKV IFALDTGEFA HVQYWAETLS DKVGMYKIGK QLFTACGPAA
60 70 80 90 100
VRMIQKFGGE VFLDLKFHDI PNTVAMASVE AARMGVKLFN LHALGGYEMM
110 120 130 140 150
AKTVEALDKE FKGGDRAKVL AVTILTSSTE ETLKDLGIEH TVPDMVVRLA
160 170 180 190 200
TLARKAGIDG VVASPREIPL IREACGSDFL IVTPGVRPSF AALNDQKRVM
210 220 230
TPAEAVKAGS DYLVIGRPIG DAPDPAAAAE LILGEIVAG
Length:239
Mass (Da):25,631
Last modified:November 22, 2005 - v1
Checksum:iE1939F4F1E2B3C1A
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000148 Genomic DNA. Translation: ABB31589.1.
RefSeqiWP_004513153.1. NC_007517.1.
YP_006720321.1. NC_007517.1.

Genome annotation databases

EnsemblBacteriaiABB31589; ABB31589; Gmet_1355.
GeneIDi3738689.
KEGGigme:Gmet_1355.
PATRICi22001922. VBIGeoMet55070_1393.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000148 Genomic DNA. Translation: ABB31589.1 .
RefSeqi WP_004513153.1. NC_007517.1.
YP_006720321.1. NC_007517.1.

3D structure databases

ProteinModelPortali Q39VY5.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 269799.Gmet_1355.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ABB31589 ; ABB31589 ; Gmet_1355 .
GeneIDi 3738689.
KEGGi gme:Gmet_1355.
PATRICi 22001922. VBIGeoMet55070_1393.

Phylogenomic databases

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

Enzyme and pathway databases

UniPathwayi UPA00070 ; UER00120 .
BioCyci GMET269799:GHNY-1373-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 Geobacter metallireducens GS-15."
    US DOE Joint Genome Institute
    Copeland A., Lucas S., Lapidus A., Barry K., Detter J.C., Glavina T., Hammon N., Israni S., Pitluck S., Di Bartolo G., Chain P., Schmutz J., Larimer F., Land M., Kyrpides N., Ivanova N., Richardson P.
    Submitted (OCT-2005) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: GS-15 / ATCC 53774 / DSM 7210.

Entry informationi

Entry nameiPYRF_GEOMG
AccessioniPrimary (citable) accession number: Q39VY5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 27, 2006
Last sequence update: November 22, 2005
Last modified: October 29, 2014
This is version 62 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