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Q9LCT0 (PYRF_BRADU) Reviewed, UniProtKB/Swiss-Prot

Last modified July 9, 2014. Version 82. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Orotidine 5'-phosphate decarboxylase

EC=4.1.1.23
Alternative name(s):
OMP decarboxylase
Short name=OMPDCase
Short name=OMPdecase
Gene names
Name:pyrF
Ordered Locus Names:blr0683
OrganismBradyrhizobium diazoefficiens (strain JCM 10833 / IAM 13628 / NBRC 14792 / USDA 110) [Reference proteome] [HAMAP]
Taxonomic identifier224911 [NCBI]
Taxonomic lineageBacteriaProteobacteriaAlphaproteobacteriaRhizobialesBradyrhizobiaceaeBradyrhizobium

Protein attributes

Sequence length237 AA.
Sequence statusComplete.
Protein existenceInferred from homology

General annotation (Comments)

Function

Catalyzes the decarboxylation of orotidine 5'-monophosphate (OMP) to uridine 5'-monophosphate (UMP) By similarity. HAMAP-Rule MF_01200

Catalytic activity

Orotidine 5'-phosphate = UMP + CO2. HAMAP-Rule MF_01200

Pathway

Pyrimidine metabolism; UMP biosynthesis via de novo pathway; UMP from orotate: step 2/2. HAMAP-Rule MF_01200

Subunit structure

Homodimer By similarity. HAMAP-Rule MF_01200

Sequence similarities

Belongs to the OMP decarboxylase family. Type 1 subfamily.

Ontologies

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 237237Orotidine 5'-phosphate decarboxylase HAMAP-Rule MF_01200
PRO_0000134529

Regions

Region66 – 7510Substrate binding By similarity

Sites

Active site681Proton donor By similarity
Binding site171Substrate By similarity
Binding site391Substrate By similarity
Binding site1211Substrate By similarity
Binding site1821Substrate By similarity
Binding site1911Substrate By similarity
Binding site2111Substrate; via amide nitrogen By similarity
Binding site2121Substrate By similarity

Sequences

Sequence LengthMass (Da)Tools
Q9LCT0 [UniParc].

Last modified October 1, 2000. Version 1.
Checksum: 08BFC448A96F5A75

FASTA23724,673
        10         20         30         40         50         60 
MTPAEIAPKD RLIVALDLPS VDAAEAMIAR LGDSVTFYKI GYRLAYAGGL PLVARLADKG 

        70         80         90        100        110        120 
KKVFLDLKLH DIGNTVAQGV ESITRLGATF LTVHAYPQTM KGAVEGRGGS NLKILAVTVL 

       130        140        150        160        170        180 
TSYNEDDLHA AGFRLGVAEL VEARAQQAQV LGIDGLVSSP EEVGALRKIV GHQMSLVTPG 

       190        200        210        220        230 
IRPAGSASGD QKRIMTPGRA ITAGADYLVV GRPVVEAAEP KAIADAIQAE IGQALGA 

« Hide

References

« Hide 'large scale' references
[1]"Phosphatidylcholine levels in Bradyrhizobium japonicum membranes are critical for an efficient symbiosis with the soybean host plant."
Minder A.C., de Rudder K.E.E., Narberhaus F., Fischer H.-M., Hennecke H., Geiger O.
Mol. Microbiol. 39:1186-1198(2001) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
Strain: USDA 110spc4.
[2]"Complete genomic sequence of nitrogen-fixing symbiotic bacterium Bradyrhizobium japonicum USDA110."
Kaneko T., Nakamura Y., Sato S., Minamisawa K., Uchiumi T., Sasamoto S., Watanabe A., Idesawa K., Iriguchi M., Kawashima K., Kohara M., Matsumoto M., Shimpo S., Tsuruoka H., Wada T., Yamada M., Tabata S.
DNA Res. 9:189-197(2002) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: JCM 10833 / IAM 13628 / NBRC 14792 / USDA 110.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
Y09633 Genomic DNA. Translation: CAB91880.1.
BA000040 Genomic DNA. Translation: BAC45948.1.
RefSeqNP_767323.1. NC_004463.1.

3D structure databases

ProteinModelPortalQ9LCT0.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING224911.blr0683.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaBAC45948; BAC45948; BAC45948.
GeneID1049301.
KEGGbja:blr0683.
PATRIC21184860. VBIBraJap65052_0704.

Phylogenomic databases

eggNOGCOG0284.
HOGENOMHOG000226070.
KOK01591.
OrthoDBEOG6N6815.
PhylomeDBQ9LCT0.

Enzyme and pathway databases

BioCycBJAP224911:GJEJ-689-MONOMER.
UniPathwayUPA00070; UER00120.

Family and domain databases

Gene3D3.20.20.70. 1 hit.
HAMAPMF_01200_B. OMPdecase_type1_B.
InterProIPR013785. Aldolase_TIM.
IPR014732. OMPdecase.
IPR018089. OMPdecase_AS.
IPR001754. OMPdeCOase_dom.
IPR011060. RibuloseP-bd_barrel.
[Graphical view]
PfamPF00215. OMPdecase. 1 hit.
[Graphical view]
SMARTSM00934. OMPdecase. 1 hit.
[Graphical view]
SUPFAMSSF51366. SSF51366. 1 hit.
TIGRFAMsTIGR01740. pyrF. 1 hit.
PROSITEPS00156. OMPDECASE. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry namePYRF_BRADU
AccessionPrimary (citable) accession number: Q9LCT0
Entry history
Integrated into UniProtKB/Swiss-Prot: January 23, 2002
Last sequence update: October 1, 2000
Last modified: July 9, 2014
This is version 82 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

PATHWAY comments

Index of metabolic and biosynthesis pathways