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Q9LCT0

- PYRF_BRADU

UniProt

Q9LCT0 - PYRF_BRADU

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Protein

Orotidine 5'-phosphate decarboxylase

Gene

pyrF

Organism
Bradyrhizobium diazoefficiens (strain JCM 10833 / IAM 13628 / NBRC 14792 / USDA 110)
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).UniRule annotation

Catalytic activityi

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

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei17 – 171SubstrateUniRule annotation
Binding sitei39 – 391SubstrateUniRule annotation
Active sitei68 – 681Proton donorUniRule annotation
Binding sitei121 – 1211SubstrateUniRule annotation
Binding sitei182 – 1821SubstrateUniRule annotation
Binding sitei191 – 1911SubstrateUniRule annotation
Binding sitei211 – 2111Substrate; via amide nitrogenUniRule annotation
Binding sitei212 – 2121SubstrateUniRule 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

BioCyciBJAP224911:GJEJ-689-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:blr0683
OrganismiBradyrhizobium diazoefficiens (strain JCM 10833 / IAM 13628 / NBRC 14792 / USDA 110)
Taxonomic identifieri224911 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesBradyrhizobiaceaeBradyrhizobium
ProteomesiUP000002526: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 237237Orotidine 5'-phosphate decarboxylasePRO_0000134529Add
BLAST

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi224911.blr0683.

Structurei

3D structure databases

ProteinModelPortaliQ9LCT0.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni66 – 7510Substrate bindingUniRule annotation

Sequence similaritiesi

Belongs to the OMP decarboxylase family. Type 1 subfamily.UniRule annotation

Phylogenomic databases

eggNOGiCOG0284.
HOGENOMiHOG000226070.
InParanoidiQ9LCT0.
KOiK01591.
OrthoDBiEOG6N6815.
PhylomeDBiQ9LCT0.

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.

Q9LCT0 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MTPAEIAPKD RLIVALDLPS VDAAEAMIAR LGDSVTFYKI GYRLAYAGGL
60 70 80 90 100
PLVARLADKG KKVFLDLKLH DIGNTVAQGV ESITRLGATF LTVHAYPQTM
110 120 130 140 150
KGAVEGRGGS NLKILAVTVL TSYNEDDLHA AGFRLGVAEL VEARAQQAQV
160 170 180 190 200
LGIDGLVSSP EEVGALRKIV GHQMSLVTPG IRPAGSASGD QKRIMTPGRA
210 220 230
ITAGADYLVV GRPVVEAAEP KAIADAIQAE IGQALGA
Length:237
Mass (Da):24,673
Last modified:October 1, 2000 - v1
Checksum:i08BFC448A96F5A75
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
Y09633 Genomic DNA. Translation: CAB91880.1.
BA000040 Genomic DNA. Translation: BAC45948.1.
RefSeqiNP_767323.1. NC_004463.1.

Genome annotation databases

EnsemblBacteriaiBAC45948; BAC45948; BAC45948.
GeneIDi1049301.
KEGGibja:blr0683.
PATRICi21184860. VBIBraJap65052_0704.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
Y09633 Genomic DNA. Translation: CAB91880.1 .
BA000040 Genomic DNA. Translation: BAC45948.1 .
RefSeqi NP_767323.1. NC_004463.1.

3D structure databases

ProteinModelPortali Q9LCT0.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 224911.blr0683.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai BAC45948 ; BAC45948 ; BAC45948 .
GeneIDi 1049301.
KEGGi bja:blr0683.
PATRICi 21184860. VBIBraJap65052_0704.

Phylogenomic databases

eggNOGi COG0284.
HOGENOMi HOG000226070.
InParanoidi Q9LCT0.
KOi K01591.
OrthoDBi EOG6N6815.
PhylomeDBi Q9LCT0.

Enzyme and pathway databases

UniPathwayi UPA00070 ; UER00120 .
BioCyci BJAP224911:GJEJ-689-MONOMER.

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

« Hide 'large scale' publications
  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. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: JCM 10833 / IAM 13628 / NBRC 14792 / USDA 110.

Entry informationi

Entry nameiPYRF_BRADU
AccessioniPrimary (citable) accession number: Q9LCT0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 23, 2002
Last sequence update: October 1, 2000
Last modified: October 29, 2014
This is version 84 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