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Protein

Orotidine 5'-phosphate decarboxylase

Gene

URA3

Organism
Yarrowia lipolytica (strain CLIB 122 / E 150) (Yeast) (Candida lipolytica)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

Catalytic activityi

Orotidine 5'-phosphate = UMP + CO2.PROSITE-ProRule annotation

Pathway: UMP biosynthesis via de novo pathway

This protein is involved in step 2 of the subpathway that synthesizes UMP from orotate.
Proteins known to be involved in the 2 steps of the subpathway in this organism are:
  1. Orotate phosphoribosyltransferase (URA5)
  2. Orotidine 5'-phosphate decarboxylase (URA3)
This subpathway is part of the pathway UMP biosynthesis via de novo pathway, which is itself part of Pyrimidine metabolism.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes UMP from orotate, the pathway UMP biosynthesis via de novo pathway and in Pyrimidine metabolism.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei35 – 351SubstrateBy similarity
Active sitei91 – 911Proton donorPROSITE-ProRule annotation
Binding sitei239 – 2391SubstrateBy similarity
Binding sitei257 – 2571SubstrateBy similarity

GO - Molecular functioni

GO - Biological processi

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
Uridine 5'-monophosphate synthase
Short name:
UMP synthase
Gene namesi
Name:URA3
Ordered Locus Names:YALI0E26741g
OrganismiYarrowia lipolytica (strain CLIB 122 / E 150) (Yeast) (Candida lipolytica)
Taxonomic identifieri284591 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesDipodascaceaeYarrowia
ProteomesiUP000001300 Componenti: Chromosome E

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 286286Orotidine 5'-phosphate decarboxylasePRO_0000134691Add
BLAST

Structurei

3D structure databases

ProteinModelPortaliQ12724.
SMRiQ12724. Positions 2-283.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni57 – 593Substrate bindingBy similarity
Regioni89 – 9810Substrate bindingBy similarity

Sequence similaritiesi

Belongs to the OMP decarboxylase family.Curated

Phylogenomic databases

eggNOGiCOG0284.
InParanoidiQ12724.
OrthoDBiEOG7CVQ76.

Family and domain databases

Gene3Di3.20.20.70. 1 hit.
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. 2 hits.
TIGRFAMsiTIGR01740. pyrF. 2 hits.
PROSITEiPS00156. OMPDECASE. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q12724-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MPSYEARANV HKSAFAARVL KLVAAKKTNL CASLDVTTTK ELIELADKVG
60 70 80 90 100
PYVCMIKTHI DIIDDFTYAG TVLPLKELAL KHGFFLFEDR KFADIGNTVK
110 120 130 140 150
HQYKNGVYRI AEWSDITNAH GVPGTGIIAG LRAGAEETVS EQKKEDVSDY
160 170 180 190 200
ENSQYKEFLV PSPNEKLARG LLMLAELSCK GSLATGEYSK QTIELARSDP
210 220 230 240 250
EFVVGFIAQN RPKGDSEDWL ILTPGVGLDD KGDALGQQYR TVEDVMSTGT
260 270 280
DIIIVGRGLY GQNRDPIEEA KRYQKAGWEA YQKINC
Length:286
Mass (Da):31,630
Last modified:November 1, 1997 - v1
Checksum:i7E71BFE84C61F216
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti104 – 1085KNGVY → RCH in CAC32856 (PubMed:11489863).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ306421 Genomic DNA. Translation: CAC32856.1.
U40564 Genomic DNA. Translation: AAA85392.1.
CR382131 Genomic DNA. No translation available.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ306421 Genomic DNA. Translation: CAC32856.1.
U40564 Genomic DNA. Translation: AAA85392.1.
CR382131 Genomic DNA. No translation available.

3D structure databases

ProteinModelPortaliQ12724.
SMRiQ12724. Positions 2-283.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Phylogenomic databases

eggNOGiCOG0284.
InParanoidiQ12724.
OrthoDBiEOG7CVQ76.

Enzyme and pathway databases

UniPathwayiUPA00070; UER00120.

Family and domain databases

Gene3Di3.20.20.70. 1 hit.
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. 2 hits.
TIGRFAMsiTIGR01740. pyrF. 2 hits.
PROSITEiPS00156. OMPDECASE. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Insertional mutagenesis in the n-alkane-assimilating yeast Yarrowia lipolytica: generation of tagged mutations in genes involved in hydrophobic substrate utilization."
    Mauersberger S., Wang H., Gaillardin C., Barth G., Nicaud J.-M.
    J. Bacteriol. 183:5102-5109(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: ATCC 20460 / W29 / CBS 7504 / IFP29.
  2. Strick C.A., James L.C., O'Donnell M.M., Elsenboss L.A.
    Submitted (NOV-1995) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  3. "Genome evolution in yeasts."
    Dujon B., Sherman D., Fischer G., Durrens P., Casaregola S., Lafontaine I., de Montigny J., Marck C., Neuveglise C., Talla E., Goffard N., Frangeul L., Aigle M., Anthouard V., Babour A., Barbe V., Barnay S., Blanchin S.
    , Beckerich J.-M., Beyne E., Bleykasten C., Boisrame A., Boyer J., Cattolico L., Confanioleri F., de Daruvar A., Despons L., Fabre E., Fairhead C., Ferry-Dumazet H., Groppi A., Hantraye F., Hennequin C., Jauniaux N., Joyet P., Kachouri R., Kerrest A., Koszul R., Lemaire M., Lesur I., Ma L., Muller H., Nicaud J.-M., Nikolski M., Oztas S., Ozier-Kalogeropoulos O., Pellenz S., Potier S., Richard G.-F., Straub M.-L., Suleau A., Swennen D., Tekaia F., Wesolowski-Louvel M., Westhof E., Wirth B., Zeniou-Meyer M., Zivanovic Y., Bolotin-Fukuhara M., Thierry A., Bouchier C., Caudron B., Scarpelli C., Gaillardin C., Weissenbach J., Wincker P., Souciet J.-L.
    Nature 430:35-44(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA] OF 1-7 AND 250-284.
    Strain: CLIB 122 / E 150.

Entry informationi

Entry nameiPYRF_YARLI
AccessioniPrimary (citable) accession number: Q12724
Secondary accession number(s): Q6C4H6, Q9C1U4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: November 1, 1997
Last modified: June 24, 2015
This is version 84 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Caution

Strain CLIB 122 / E 150 has a defective URA3 sequence (ura3-302) which is disrupted (positions 8 to 249) by S.cerevisiae SUC2.Curated

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

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.