Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein

Orotidine 5'-phosphate decarboxylase

Gene

pyrF

Organism
Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)
Status
Reviewed-Annotation score: Annotation score: 2 out of 5-Protein inferred from homologyi

Functioni

Catalytic activityi

Orotidine 5'-phosphate = UMP + CO2.

Pathway:iUMP 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 (pyrE)
  2. Orotidine 5'-phosphate decarboxylase (pyrF)
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
Active sitei95 – 951Proton donorBy similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Decarboxylase, Lyase

Keywords - Biological processi

Pyrimidine biosynthesis

Enzyme and pathway databases

BioCyciMSME246196:GJ4Y-3048-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:MSMEG_3048, MSMEI_2974
OrganismiMycobacterium smegmatis (strain ATCC 700084 / mc(2)155)
Taxonomic identifieri246196 [NCBI]
Taxonomic lineageiBacteriaActinobacteriaCorynebacterialesMycobacteriaceaeMycobacterium
ProteomesiUP000006158 Componenti: Chromosome UP000000757 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 276276Orotidine 5'-phosphate decarboxylasePRO_0000134629Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi246196.MSMEG_3048.

Structurei

3D structure databases

ProteinModelPortaliO08323.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG0284.
HOGENOMiHOG000245748.
KOiK01591.
OMAiQSAFFER.
OrthoDBiEOG6DZF33.

Family and domain databases

Gene3Di3.20.20.70. 1 hit.
HAMAPiMF_01215. OMPdecase_type2.
InterProiIPR013785. Aldolase_TIM.
IPR018089. OMPdecase_AS.
IPR011995. OMPdecase_type-2.
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.
TIGRFAMsiTIGR02127. pyrF_sub2. 1 hit.
PROSITEiPS00156. OMPDECASE. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

O08323-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTGFGQRLDA AVSARGPLCP GIDPHPELLN AWGLTVDAEG LRAFCDICVA
60 70 80 90 100
AFAGFAIVKP QVAFFEAYGS AGFAVLEDTI AALRAEGVLV LADAKRGDIG
110 120 130 140 150
STMAAYAAAW AGDSPLAADA VTASPYLGFG SLRPLLDTAV ANGRGVFVLA
160 170 180 190 200
ATSNPEGVGL QRAVAGDVTV AQSIVDAVAQ ANREADPAAR DGDPVGPFGV
210 220 230 240 250
VVGATVADPP DLHMLGGPVL VPGVGAQGGR PEALGGLGNA RRLLPAVSRE
260 270
VLRAGPAVDD VRAAAERLRD QVAYLA
Length:276
Mass (Da):27,816
Last modified:July 1, 1997 - v1
Checksum:i41437843A3E2A896
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U91572 Genomic DNA. Translation: AAB50157.1.
CP000480 Genomic DNA. Translation: ABK73017.1.
CP001663 Genomic DNA. Translation: AFP39438.1.
RefSeqiWP_003894432.1. NZ_CP009494.1.
YP_887364.1. NC_008596.1.

Genome annotation databases

EnsemblBacteriaiABK73017; ABK73017; MSMEG_3048.
AFP39438; AFP39438; MSMEI_2974.
GeneIDi4532520.
KEGGimsg:MSMEI_2974.
msm:MSMEG_3048.
PATRICi18078524. VBIMycSme59918_3010.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U91572 Genomic DNA. Translation: AAB50157.1.
CP000480 Genomic DNA. Translation: ABK73017.1.
CP001663 Genomic DNA. Translation: AFP39438.1.
RefSeqiWP_003894432.1. NZ_CP009494.1.
YP_887364.1. NC_008596.1.

3D structure databases

ProteinModelPortaliO08323.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi246196.MSMEG_3048.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABK73017; ABK73017; MSMEG_3048.
AFP39438; AFP39438; MSMEI_2974.
GeneIDi4532520.
KEGGimsg:MSMEI_2974.
msm:MSMEG_3048.
PATRICi18078524. VBIMycSme59918_3010.

Phylogenomic databases

eggNOGiCOG0284.
HOGENOMiHOG000245748.
KOiK01591.
OMAiQSAFFER.
OrthoDBiEOG6DZF33.

Enzyme and pathway databases

UniPathwayiUPA00070; UER00120.
BioCyciMSME246196:GJ4Y-3048-MONOMER.

Family and domain databases

Gene3Di3.20.20.70. 1 hit.
HAMAPiMF_01215. OMPdecase_type2.
InterProiIPR013785. Aldolase_TIM.
IPR018089. OMPdecase_AS.
IPR011995. OMPdecase_type-2.
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.
TIGRFAMsiTIGR02127. pyrF_sub2. 1 hit.
PROSITEiPS00156. OMPDECASE. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Unmarked gene integration into the chromosome of Mycobacterium smegmatis via precise replacement of the pyrF gene."
    Knipfer N., Seth A., Shrader T.E.
    Plasmid 37:129-140(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  2. Fleischmann R.D., Dodson R.J., Haft D.H., Merkel J.S., Nelson W.C., Fraser C.M.
    Submitted (OCT-2006) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 700084 / mc(2)155.
  3. "Interrupted coding sequences in Mycobacterium smegmatis: authentic mutations or sequencing errors?"
    Deshayes C., Perrodou E., Gallien S., Euphrasie D., Schaeffer C., Van-Dorsselaer A., Poch O., Lecompte O., Reyrat J.-M.
    Genome Biol. 8:R20.1-R20.9(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 700084 / mc(2)155.
  4. "Ortho-proteogenomics: multiple proteomes investigation through orthology and a new MS-based protocol."
    Gallien S., Perrodou E., Carapito C., Deshayes C., Reyrat J.-M., Van Dorsselaer A., Poch O., Schaeffer C., Lecompte O.
    Genome Res. 19:128-135(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 700084 / mc(2)155.

Entry informationi

Entry nameiPYRF_MYCS2
AccessioniPrimary (citable) accession number: O08323
Secondary accession number(s): A0QWS6, I7FL41
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 30, 2000
Last sequence update: July 1, 1997
Last modified: July 22, 2015
This is version 94 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

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.