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A5F6Y1

- PYRF_VIBC3

UniProt

A5F6Y1 - PYRF_VIBC3

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Protein
Orotidine 5'-phosphate decarboxylase
Gene
pyrF, VC0395_A1501, VC395_2026
Organism
Vibrio cholerae serotype O1 (strain ATCC 39541 / Classical Ogawa 395 / O395)
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

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:VC0395_A1501, VC395_2026
OrganismiVibrio cholerae serotype O1 (strain ATCC 39541 / Classical Ogawa 395 / O395)
Taxonomic identifieri345073 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaVibrionalesVibrionaceaeVibrio
ProteomesiUP000000249: Chromosome 2, UP000001630: Chromosome I

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 231231Orotidine 5'-phosphate decarboxylaseUniRule annotation
PRO_1000073091Add
BLAST

Interactioni

Subunit structurei

Homodimer By similarity.UniRule annotation

Protein-protein interaction databases

STRINGi345073.VC0395_A1501.

Structurei

3D structure databases

ProteinModelPortaliA5F6Y1.
SMRiA5F6Y1. Positions 2-230.

Family & Domainsi

Region

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

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG0284.
HOGENOMiHOG000226071.
KOiK01591.
OMAiRPITQSA.

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.

A5F6Y1-1 [UniParc]FASTAAdd to Basket

« Hide

MNDPKVIVAL DYDNLADALA FVDKIDPSTC RLKVGKEMFT LFGPDFVREL    50
HKRGFSVFLD LKFHDIPNTC SKAVKAAAEL GVWMVNVHAS GGERMMAASR 100
EILEPYGKER PLLIGVTVLT SMESADLQGI GILSAPQDHV LRLATLAKNA 150
GLDGVVCSAQ EASLLKQHLG REFKLVTPGI RPAGSEQGDQ RRIMTPAQAI 200
ASGSDYLVIG RPITQAAHPE VVLEEINSSL V 231
Length:231
Mass (Da):24,973
Last modified:June 12, 2007 - v1
Checksum:iFE3AC11A8211E987
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000627 Genomic DNA. Translation: ABQ21404.1.
CP001235 Genomic DNA. Translation: ACP10019.1.
RefSeqiYP_001217444.1. NC_009457.1.
YP_002820255.1. NC_012582.1.

Genome annotation databases

EnsemblBacteriaiABQ21404; ABQ21404; VC0395_A1501.
ACP10019; ACP10019; VC395_2026.
GeneIDi5135731.
7775858.
KEGGivco:VC0395_A1501.
vcr:VC395_2026.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000627 Genomic DNA. Translation: ABQ21404.1 .
CP001235 Genomic DNA. Translation: ACP10019.1 .
RefSeqi YP_001217444.1. NC_009457.1.
YP_002820255.1. NC_012582.1.

3D structure databases

ProteinModelPortali A5F6Y1.
SMRi A5F6Y1. Positions 2-230.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 345073.VC0395_A1501.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ABQ21404 ; ABQ21404 ; VC0395_A1501 .
ACP10019 ; ACP10019 ; VC395_2026 .
GeneIDi 5135731.
7775858.
KEGGi vco:VC0395_A1501.
vcr:VC395_2026.

Phylogenomic databases

eggNOGi COG0284.
HOGENOMi HOG000226071.
KOi K01591.
OMAi RPITQSA.

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. Heidelberg J.
    Submitted (MAR-2007) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 39541 / Classical Ogawa 395 / O395.
  2. "A recalibrated molecular clock and independent origins for the cholera pandemic clones."
    Feng L., Reeves P.R., Lan R., Ren Y., Gao C., Zhou Z., Ren Y., Cheng J., Wang W., Wang J., Qian W., Li D., Wang L.
    PLoS ONE 3:E4053-E4053(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 39541 / Classical Ogawa 395 / O395.

Entry informationi

Entry nameiPYRF_VIBC3
AccessioniPrimary (citable) accession number: A5F6Y1
Secondary accession number(s): C3M1W4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 26, 2008
Last sequence update: June 12, 2007
Last modified: May 14, 2014
This is version 48 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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