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Q9KQT7

- PYRF_VIBCH

UniProt

Q9KQT7 - PYRF_VIBCH

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Protein

Orotidine 5'-phosphate decarboxylase

Gene

pyrF

Organism
Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at protein leveli

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: TIGR

GO - Biological processi

  1. 'de novo' pyrimidine nucleobase biosynthetic process Source: InterPro
  2. 'de novo' UMP biosynthetic process Source: UniProtKB-UniPathway
  3. pyrimidine ribonucleotide biosynthetic process Source: TIGR
Complete GO annotation...

Keywords - Molecular functioni

Decarboxylase, Lyase

Keywords - Biological processi

Pyrimidine biosynthesis

Enzyme and pathway databases

BioCyciVCHO:VC1911-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:VC_1911
OrganismiVibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)
Taxonomic identifieri243277 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaVibrionalesVibrionaceaeVibrio
ProteomesiUP000000584: Chromosome 1

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 231231Orotidine 5'-phosphate decarboxylasePRO_0000134596Add
BLAST

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi243277.VC1911.

Structurei

Secondary structure

1
231
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi6 – 105Combined sources
Helixi15 – 228Combined sources
Helixi27 – 293Combined sources
Beta strandi31 – 355Combined sources
Helixi36 – 5217Combined sources
Beta strandi57 – 637Combined sources
Helixi67 – 7913Combined sources
Beta strandi83 – 886Combined sources
Helixi89 – 913Combined sources
Helixi93 – 10311Combined sources
Helixi104 – 1096Combined sources
Beta strandi112 – 1165Combined sources
Helixi124 – 1296Combined sources
Helixi136 – 14914Combined sources
Beta strandi153 – 1564Combined sources
Helixi159 – 16911Combined sources
Beta strandi173 – 1786Combined sources
Beta strandi191 – 1933Combined sources
Helixi196 – 2016Combined sources
Beta strandi205 – 2095Combined sources
Helixi211 – 2144Combined sources
Helixi219 – 22911Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3LDVX-ray1.77A/B1-231[»]
3UWQX-ray1.80A/B1-231[»]
ProteinModelPortaliQ9KQT7.
SMRiQ9KQT7. Positions 2-230.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9KQT7.

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.
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.

Q9KQT7-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MNDPKVIVAL DYDNLADALA FVDKIDPSTC RLKVGKEMFT LFGPDFVREL
60 70 80 90 100
HKRGFSVFLD LKFHDIPNTC SKAVKAAAEL GVWMVNVHAS GGERMMAASR
110 120 130 140 150
EILEPYGKER PLLIGVTVLT SMESADLQGI GILSAPQDHV LRLATLTKNA
160 170 180 190 200
GLDGVVCSAQ EASLLKQHLG REFKLVTPGI RPAGSEQGDQ RRIMTPAQAI
210 220 230
ASGSDYLVIG RPITQAAHPE VVLEEINSSL V
Length:231
Mass (Da):25,003
Last modified:October 1, 2000 - v1
Checksum:iEB2E841A990B582C
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE003852 Genomic DNA. Translation: AAF95059.1.
PIRiA82143.
RefSeqiNP_231545.1. NC_002505.1.

Genome annotation databases

EnsemblBacteriaiAAF95059; AAF95059; VC_1911.
GeneIDi2613540.
KEGGivch:VC1911.
PATRICi20082866. VBIVibCho83274_1828.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE003852 Genomic DNA. Translation: AAF95059.1 .
PIRi A82143.
RefSeqi NP_231545.1. NC_002505.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
3LDV X-ray 1.77 A/B 1-231 [» ]
3UWQ X-ray 1.80 A/B 1-231 [» ]
ProteinModelPortali Q9KQT7.
SMRi Q9KQT7. Positions 2-230.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 243277.VC1911.

Protocols and materials databases

DNASUi 2613540.
Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AAF95059 ; AAF95059 ; VC_1911 .
GeneIDi 2613540.
KEGGi vch:VC1911.
PATRICi 20082866. VBIVibCho83274_1828.

Phylogenomic databases

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

Enzyme and pathway databases

UniPathwayi UPA00070 ; UER00120 .
BioCyci VCHO:VC1911-MONOMER.

Miscellaneous databases

EvolutionaryTracei Q9KQT7.

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. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 39315 / El Tor Inaba N16961.

Entry informationi

Entry nameiPYRF_VIBCH
AccessioniPrimary (citable) accession number: Q9KQT7
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 23, 2002
Last sequence update: October 1, 2000
Last modified: November 26, 2014
This is version 84 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

3D-structure, Complete proteome, Reference proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3