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B5FG54

- PYRF_VIBFM

UniProt

B5FG54 - PYRF_VIBFM

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Protein
Orotidine 5'-phosphate decarboxylase
Gene
pyrF, VFMJ11_1882
Organism
Vibrio fischeri (strain MJ11)
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) By similarity.UniRule annotation

Catalytic activityi

Orotidine 5'-phosphate = UMP + CO2.UniRule annotation

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei11 – 111Substrate By similarity
Binding sitei33 – 331Substrate By similarity
Active sitei62 – 621Proton donor By similarity
Binding sitei120 – 1201Substrate By similarity
Binding sitei181 – 1811Substrate By similarity
Binding sitei190 – 1901Substrate By similarity
Binding sitei210 – 2101Substrate; via amide nitrogen By similarity
Binding sitei211 – 2111Substrate By similarity

GO - Molecular functioni

  1. orotidine-5'-phosphate decarboxylase activity Source: UniProtKB-HAMAP
Complete GO annotation...

GO - Biological processi

  1. 'de novo' UMP biosynthetic process Source: UniProtKB-UniPathway
  2. 'de novo' pyrimidine nucleobase biosynthetic process Source: InterPro
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 decarboxylase (EC:4.1.1.23)
Alternative name(s):
OMP decarboxylase
Short name:
OMPDCase
Short name:
OMPdecase
Gene namesi
Name:pyrF
Ordered Locus Names:VFMJ11_1882
OrganismiVibrio fischeri (strain MJ11)
Taxonomic identifieri388396 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaVibrionalesVibrionaceaeAliivibrio
ProteomesiUP000001857: Chromosome I

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 234234Orotidine 5'-phosphate decarboxylaseUniRule annotation
PRO_1000138568Add
BLAST

Interactioni

Subunit structurei

Homodimer By similarity.UniRule annotation

Protein-protein interaction databases

STRINGi388396.VFMJ11_1882.

Structurei

3D structure databases

ProteinModelPortaliB5FG54.
SMRiB5FG54. Positions 1-230.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni60 – 6910Substrate binding By similarity

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG0284.
HOGENOMiHOG000226071.
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.

B5FG54-1 [UniParc]FASTAAdd to Basket

« Hide

MKDQKVIVAL DYDNQADALT FVDKIDPSSC RLKVGKEMFT LFGPEFVKEL    50
HKRGFSVFLD LKFHDIPNTC SKAVRAAAEM GVWMVNVHAS GGERMMSASR 100
EILEPYGSDR PLLIGVTVLT SMEQQDLAGI GLDIAPQEQV KRLAALTKNS 150
GLDGVVCSAQ EASMLKADLG KEFQLVTPGI RPAGADVGDQ KRIMTPVDAI 200
TAGSDYLVIG RPITQAENPS QVLNEINLSL ASVL 234
Length:234
Mass (Da):25,304
Last modified:October 14, 2008 - v1
Checksum:iC732A93035464284
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP001139 Genomic DNA. Translation: ACH66326.1.
RefSeqiYP_002156577.1. NC_011184.1.

Genome annotation databases

EnsemblBacteriaiACH66326; ACH66326; VFMJ11_1882.
GeneIDi6807416.
KEGGivfm:VFMJ11_1882.
PATRICi20122228. VBIVibFis37164_1805.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP001139 Genomic DNA. Translation: ACH66326.1 .
RefSeqi YP_002156577.1. NC_011184.1.

3D structure databases

ProteinModelPortali B5FG54.
SMRi B5FG54. Positions 1-230.
ModBasei Search...

Protein-protein interaction databases

STRINGi 388396.VFMJ11_1882.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ACH66326 ; ACH66326 ; VFMJ11_1882 .
GeneIDi 6807416.
KEGGi vfm:VFMJ11_1882.
PATRICi 20122228. VBIVibFis37164_1805.

Phylogenomic databases

eggNOGi COG0284.
HOGENOMi HOG000226071.
KOi K01591.
OMAi RPITQSA.
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. "Complete sequence of Vibrio fischeri strain MJ11."
    Mandel M.J., Stabb E.V., Ruby E.G., Ferriera S., Johnson J., Kravitz S., Beeson K., Sutton G., Rogers Y.-H., Friedman R., Frazier M., Venter J.C.
    Submitted (AUG-2008) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: MJ11.

Entry informationi

Entry nameiPYRF_VIBFM
AccessioniPrimary (citable) accession number: B5FG54
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 14, 2009
Last sequence update: October 14, 2008
Last modified: May 14, 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

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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