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Q8D8J6

- PYRF_VIBVU

UniProt

Q8D8J6 - PYRF_VIBVU

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Protein

Orotidine 5'-phosphate decarboxylase

Gene

pyrF

Organism
Vibrio vulnificus (strain CMCP6)
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 sitei11 – 111SubstrateUniRule annotation
Binding sitei33 – 331SubstrateUniRule annotation
Active sitei62 – 621Proton donorUniRule annotation
Binding sitei120 – 1201SubstrateUniRule annotation
Binding sitei181 – 1811SubstrateUniRule annotation
Binding sitei190 – 1901SubstrateUniRule annotation
Binding sitei210 – 2101Substrate; via amide nitrogenUniRule annotation
Binding sitei211 – 2111SubstrateUniRule 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

BioCyciVVUL216895:GIYM-2693-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:VV1_2977
OrganismiVibrio vulnificus (strain CMCP6)
Taxonomic identifieri216895 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaVibrionalesVibrionaceaeVibrio
ProteomesiUP000002275: Chromosome 1

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 232232Orotidine 5'-phosphate decarboxylasePRO_0000134598Add
BLAST

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi216895.VV1_2977.

Structurei

3D structure databases

ProteinModelPortaliQ8D8J6.
SMRiQ8D8J6. Positions 3-232.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni60 – 6910Substrate bindingUniRule annotation

Sequence similaritiesi

Belongs to the OMP decarboxylase family. Type 1 subfamily.UniRule annotation

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.

Q8D8J6 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MIDQKVIVAL DYDNQADALA FVDRIDPASC RLKVGKEMFT LFGPDFVREL
60 70 80 90 100
HKRGFSVFLD LKFHDIPNTC SKAVRAAAEL GVWMVNVHAS GGERMMTASR
110 120 130 140 150
EILEPYGKDR PLLIGVTVLT SMEQSDLAGI GLDVAPQEHV IRLATLTKNS
160 170 180 190 200
GLDGVVCSAQ ESSLLKNELG KEFKLVTPGI RPLGSEQGDQ RRIMTPLEAV
210 220 230
QAGSDYLVIG RPITQAVDPA AVLQAINTSL TK
Length:232
Mass (Da):25,217
Last modified:March 1, 2003 - v1
Checksum:iFAD79D08FBF58B02
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AE016795 Genomic DNA. Translation: AAO11308.1.
RefSeqiNP_761781.1. NC_004459.3.
WP_011080793.1. NC_004459.3.

Genome annotation databases

EnsemblBacteriaiAAO11308; AAO11308; VV1_2977.
GeneIDi1179811.
KEGGivvu:VV1_2977.
PATRICi20162933. VBIVibVul94426_2941.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AE016795 Genomic DNA. Translation: AAO11308.1 .
RefSeqi NP_761781.1. NC_004459.3.
WP_011080793.1. NC_004459.3.

3D structure databases

ProteinModelPortali Q8D8J6.
SMRi Q8D8J6. Positions 3-232.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 216895.VV1_2977.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AAO11308 ; AAO11308 ; VV1_2977 .
GeneIDi 1179811.
KEGGi vvu:VV1_2977.
PATRICi 20162933. VBIVibVul94426_2941.

Phylogenomic databases

eggNOGi COG0284.
HOGENOMi HOG000226071.
KOi K01591.
OMAi RPITQSA.
OrthoDBi EOG6N6815.

Enzyme and pathway databases

UniPathwayi UPA00070 ; UER00120 .
BioCyci VVUL216895:GIYM-2693-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 genome sequence of Vibrio vulnificus CMCP6."
    Rhee J.H., Kim S.Y., Chung S.S., Kim J.J., Moon Y.H., Jeong H., Choy H.E.
    Submitted (DEC-2002) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: CMCP6.

Entry informationi

Entry nameiPYRF_VIBVU
AccessioniPrimary (citable) accession number: Q8D8J6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 23, 2003
Last sequence update: March 1, 2003
Last modified: October 29, 2014
This is version 78 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