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Q5JDB0

- PYRF_THEKO

UniProt

Q5JDB0 - PYRF_THEKO

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Protein
Orotidine 5'-phosphate decarboxylase
Gene
pyrF, TK2276
Organism
Thermococcus kodakaraensis (strain ATCC BAA-918 / JCM 12380 / KOD1) (Pyrococcus kodakaraensis (strain KOD1))
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) By similarity.UniRule annotation

Catalytic activityi

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

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei11 – 111Substrate By similarity
Binding sitei33 – 331Substrate By similarity
Active sitei63 – 631Proton donor By similarity
Binding sitei113 – 1131Substrate By similarity
Binding sitei189 – 1891Substrate; via amide nitrogen By similarity
Binding sitei190 – 1901Substrate By similarity

GO - Molecular functioni

  1. orotidine-5'-phosphate decarboxylase activity Source: UniProtKB-HAMAP

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

BioCyciTKOD69014:GH72-2328-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:TK2276
OrganismiThermococcus kodakaraensis (strain ATCC BAA-918 / JCM 12380 / KOD1) (Pyrococcus kodakaraensis (strain KOD1))
Taxonomic identifieri69014 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaeThermococcus
ProteomesiUP000000536: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 213213Orotidine 5'-phosphate decarboxylaseUniRule annotation
PRO_0000134617Add
BLAST

Interactioni

Subunit structurei

Homodimer By similarity.UniRule annotation

Protein-protein interaction databases

STRINGi69014.TK2276.

Structurei

3D structure databases

ProteinModelPortaliQ5JDB0.
SMRiQ5JDB0. Positions 6-209.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni61 – 7010Substrate binding By similarity
Regioni166 – 17611Substrate binding By similarity
Add
BLAST

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG0284.
HOGENOMiHOG000226069.
KOiK01591.
OMAiTEMSHPG.

Family and domain databases

Gene3Di3.20.20.70. 1 hit.
HAMAPiMF_01200_A. OMPdecase_type1_A.
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.

Q5JDB0-1 [UniParc]FASTAAdd to Basket

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MEESRLILAL DVYDRERALE IAECTADYLW AIKVNWPLII GSGLKIITEL    50
KQVTGLPIIA DLKLADIPNT NRLIASKVFE AGADYIIAHG FVGRDSVEAV 100
MELGKTIIVV EMSHPGAKEF IQPVTDKLIE LANELEPFGV IAPATRPERV 150
SYIRSRLERG IRILTPGVGA QGGKASDAIK AGADYVIVGR SIYGSNNPRE 200
AARRLYEEIL EVV 213
Length:213
Mass (Da):23,352
Last modified:February 15, 2005 - v1
Checksum:iD3F7E2F1A37C9791
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AP006878 Genomic DNA. Translation: BAD86465.1.
RefSeqiYP_184689.1. NC_006624.1.

Genome annotation databases

EnsemblBacteriaiBAD86465; BAD86465; TK2276.
GeneIDi3234718.
KEGGitko:TK2276.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AP006878 Genomic DNA. Translation: BAD86465.1 .
RefSeqi YP_184689.1. NC_006624.1.

3D structure databases

ProteinModelPortali Q5JDB0.
SMRi Q5JDB0. Positions 6-209.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 69014.TK2276.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai BAD86465 ; BAD86465 ; TK2276 .
GeneIDi 3234718.
KEGGi tko:TK2276.

Phylogenomic databases

eggNOGi COG0284.
HOGENOMi HOG000226069.
KOi K01591.
OMAi TEMSHPG.

Enzyme and pathway databases

UniPathwayi UPA00070 ; UER00120 .
BioCyci TKOD69014:GH72-2328-MONOMER.

Family and domain databases

Gene3Di 3.20.20.70. 1 hit.
HAMAPi MF_01200_A. OMPdecase_type1_A.
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 the hyperthermophilic archaeon Thermococcus kodakaraensis KOD1 and comparison with Pyrococcus genomes."
    Fukui T., Atomi H., Kanai T., Matsumi R., Fujiwara S., Imanaka T.
    Genome Res. 15:352-363(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC BAA-918 / JCM 12380 / KOD1.

Entry informationi

Entry nameiPYRF_THEKO
AccessioniPrimary (citable) accession number: Q5JDB0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 30, 2005
Last sequence update: February 15, 2005
Last modified: May 14, 2014
This is version 70 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, 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

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