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Q5L0U0

- PYRF_GEOKA

UniProt

Q5L0U0 - PYRF_GEOKA

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Protein
Orotidine 5'-phosphate decarboxylase
Gene
pyrF, GK1155
Organism
Geobacillus kaustophilus (strain HTA426)
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) By similarity.UniRule annotation

Catalytic activityi

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

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei10 – 101Substrate By similarity
Binding sitei32 – 321Substrate By similarity
Active sitei61 – 611Proton donor By similarity
Binding sitei122 – 1221Substrate By similarity
Binding sitei184 – 1841Substrate By similarity
Binding sitei193 – 1931Substrate By similarity
Binding sitei213 – 2131Substrate; via amide nitrogen By similarity
Binding sitei214 – 2141Substrate 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

BioCyciGKAU235909:GJO7-1230-MONOMER.
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:GK1155
OrganismiGeobacillus kaustophilus (strain HTA426)
Taxonomic identifieri235909 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliBacillalesBacillaceaeGeobacillus
ProteomesiUP000001172: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 244244Orotidine 5'-phosphate decarboxylaseUniRule annotation
PRO_0000241860Add
BLAST

Interactioni

Subunit structurei

Homodimer By similarity.UniRule annotation

Protein-protein interaction databases

STRINGi235909.GK1155.

Structurei

Secondary structure

Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi5 – 84
Helixi14 – 218
Helixi22 – 243
Beta strandi30 – 334
Helixi35 – 417
Helixi43 – 519
Beta strandi55 – 628
Helixi66 – 7813
Beta strandi82 – 876
Helixi88 – 903
Helixi92 – 10514
Beta strandi108 – 1103
Beta strandi114 – 1207
Helixi126 – 1316
Helixi139 – 15315
Beta strandi157 – 1593
Helixi162 – 17211
Beta strandi176 – 1805
Helixi199 – 2057
Beta strandi208 – 2125
Helixi214 – 2174
Beta strandi219 – 2213
Helixi222 – 23211

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2YYTX-ray2.30A/B/C/D1-244[»]
2YYUX-ray2.20A/B1-244[»]
ProteinModelPortaliQ5L0U0.
SMRiQ5L0U0. Positions 2-234.

Miscellaneous databases

EvolutionaryTraceiQ5L0U0.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni59 – 6810Substrate 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.

Q5L0U0-1 [UniParc]FASTAAdd to Basket

« Hide

MHTPFIVALD FPSKQEVERF LRPFAGTPLF VKVGMELYYQ EGPAIVAFLK    50
EQGHAVFLDL KLHDIPNTVK QAMKGLARVG ADLVNVHAAG GRRMMEAAIE 100
GLDAGTPSGR MRPRCIAVTQ LTSTDERMLH EELWISRPLV ETVAHYAALA 150
KESGLDGVVC SANEAAFIKE RCGASFLAVT PGIRFADDAA HDQVRVVTPR 200
KARALGSDYI VIGRSLTRAA DPLRTYARLQ HEWNGGERES TTPT 244
Length:244
Mass (Da):26,751
Last modified:February 1, 2005 - v1
Checksum:i41AB5BFD1923C349
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
BA000043 Genomic DNA. Translation: BAD75440.1.
RefSeqiYP_147008.1. NC_006510.1.

Genome annotation databases

EnsemblBacteriaiBAD75440; BAD75440; GK1155.
GeneIDi3186101.
KEGGigka:GK1155.
PATRICi21963573. VBIGeoKau81518_1256.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
BA000043 Genomic DNA. Translation: BAD75440.1 .
RefSeqi YP_147008.1. NC_006510.1.

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
2YYT X-ray 2.30 A/B/C/D 1-244 [» ]
2YYU X-ray 2.20 A/B 1-244 [» ]
ProteinModelPortali Q5L0U0.
SMRi Q5L0U0. Positions 2-234.
ModBasei Search...

Protein-protein interaction databases

STRINGi 235909.GK1155.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai BAD75440 ; BAD75440 ; GK1155 .
GeneIDi 3186101.
KEGGi gka:GK1155.
PATRICi 21963573. VBIGeoKau81518_1256.

Phylogenomic databases

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

Enzyme and pathway databases

UniPathwayi UPA00070 ; UER00120 .
BioCyci GKAU235909:GJO7-1230-MONOMER.

Miscellaneous databases

EvolutionaryTracei Q5L0U0.

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. "Thermoadaptation trait revealed by the genome sequence of thermophilic Geobacillus kaustophilus."
    Takami H., Takaki Y., Chee G.-J., Nishi S., Shimamura S., Suzuki H., Matsui S., Uchiyama I.
    Nucleic Acids Res. 32:6292-6303(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: HTA426.

Entry informationi

Entry nameiPYRF_GEOKA
AccessioniPrimary (citable) accession number: Q5L0U0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 27, 2006
Last sequence update: February 1, 2005
Last modified: May 14, 2014
This is version 65 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

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

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