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Q5L0U0

- PYRF_GEOKA

UniProt

Q5L0U0 - PYRF_GEOKA

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Protein

Orotidine 5'-phosphate decarboxylase

Gene

pyrF

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).UniRule annotation

Catalytic activityi

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

Pathwayi

Sites

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

BioCyciGKAU235909:GJO7-1230-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: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 decarboxylasePRO_0000241860Add
BLAST

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi235909.GK1155.

Structurei

Secondary structure

1
244
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi5 – 84Combined sources
Helixi14 – 218Combined sources
Helixi22 – 243Combined sources
Beta strandi30 – 334Combined sources
Helixi35 – 417Combined sources
Helixi43 – 519Combined sources
Beta strandi55 – 628Combined sources
Helixi66 – 7813Combined sources
Beta strandi82 – 876Combined sources
Helixi88 – 903Combined sources
Helixi92 – 10514Combined sources
Beta strandi108 – 1103Combined sources
Beta strandi114 – 1207Combined sources
Helixi126 – 1316Combined sources
Helixi139 – 15315Combined sources
Beta strandi157 – 1593Combined sources
Helixi162 – 17211Combined sources
Beta strandi176 – 1805Combined sources
Helixi199 – 2057Combined sources
Beta strandi208 – 2125Combined sources
Helixi214 – 2174Combined sources
Beta strandi219 – 2213Combined sources
Helixi222 – 23211Combined sources

3D structure databases

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

Miscellaneous databases

EvolutionaryTraceiQ5L0U0.

Family & Domainsi

Region

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

Q5L0U0-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MHTPFIVALD FPSKQEVERF LRPFAGTPLF VKVGMELYYQ EGPAIVAFLK
60 70 80 90 100
EQGHAVFLDL KLHDIPNTVK QAMKGLARVG ADLVNVHAAG GRRMMEAAIE
110 120 130 140 150
GLDAGTPSGR MRPRCIAVTQ LTSTDERMLH EELWISRPLV ETVAHYAALA
160 170 180 190 200
KESGLDGVVC SANEAAFIKE RCGASFLAVT PGIRFADDAA HDQVRVVTPR
210 220 230 240
KARALGSDYI VIGRSLTRAA DPLRTYARLQ HEWNGGERES TTPT
Length:244
Mass (Da):26,751
Last modified:February 1, 2005 - v1
Checksum:i41AB5BFD1923C349
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000043 Genomic DNA. Translation: BAD75440.1.
RefSeqiWP_011230655.1. NC_006510.1.
YP_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:
EMBLi
GenBanki
DDBJi
Links Updated
BA000043 Genomic DNA. Translation: BAD75440.1 .
RefSeqi WP_011230655.1. NC_006510.1.
YP_147008.1. NC_006510.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
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...
MobiDBi 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: November 26, 2014
This is version 68 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