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Protein

Orotidine 5'-phosphate decarboxylase

Gene

pyrF

Organism
Syntrophus aciditrophicus (strain SB)
Status
Reviewed-Annotation score: 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 sitei19 – 191SubstrateUniRule annotation
Binding sitei42 – 421SubstrateUniRule annotation
Active sitei71 – 711Proton donorUniRule annotation
Binding sitei133 – 1331SubstrateUniRule annotation
Binding sitei194 – 1941SubstrateUniRule annotation
Binding sitei204 – 2041SubstrateUniRule annotation
Binding sitei224 – 2241Substrate; via amide nitrogenUniRule annotation
Binding sitei225 – 2251SubstrateUniRule 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

BioCyciSACI56780:GHXT-282-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:SYNAS_02780
ORF Names:SYN_01281
OrganismiSyntrophus aciditrophicus (strain SB)
Taxonomic identifieri56780 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaDeltaproteobacteriaSyntrophobacteralesSyntrophaceaeSyntrophus
ProteomesiUP000001933 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 251251Orotidine 5'-phosphate decarboxylasePRO_0000241923Add
BLAST

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi56780.SYN_01281.

Structurei

3D structure databases

ProteinModelPortaliQ2LQ82.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni69 – 7810Substrate bindingUniRule annotation

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiCOG0284.
HOGENOMiHOG000226070.
KOiK01591.
OMAiNFKIFLD.
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.

Q2LQ82-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTKTMSNKES LEKLIFALDM GGGLDDVMSW VRRLAGHVGV FKVGKEAFTR
60 70 80 90 100
FGPQLVQSIQ ETGSRVFLDL KFHDIPNTVA RAAEGAVELG VAMFNVHALG
110 120 130 140 150
GMSMMTETVE SVKKMAGRRE LPMPLILGVT VLTSLNDEDL QRLGFTCTTG
160 170 180 190 200
ELVLRLARMA QDAGLSGVVA SAQDVEAIRA ACGKDFVIVT PGIRGLARVA
210 220 230 240 250
GDDQKRVLTA EEAVRRGSDY LVIGRPIRTA EDPVAAADDF CREIARGLSA

R
Length:251
Mass (Da):27,021
Last modified:February 21, 2006 - v1
Checksum:i0BDAD356B62E33A7
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000252 Genomic DNA. Translation: ABC76157.1.
RefSeqiYP_460325.1. NC_007759.1.

Genome annotation databases

EnsemblBacteriaiABC76157; ABC76157; SYN_01281.
KEGGisat:SYN_01281.
PATRICi23860957. VBISynAci70500_0306.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000252 Genomic DNA. Translation: ABC76157.1.
RefSeqiYP_460325.1. NC_007759.1.

3D structure databases

ProteinModelPortaliQ2LQ82.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi56780.SYN_01281.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABC76157; ABC76157; SYN_01281.
KEGGisat:SYN_01281.
PATRICi23860957. VBISynAci70500_0306.

Phylogenomic databases

eggNOGiCOG0284.
HOGENOMiHOG000226070.
KOiK01591.
OMAiNFKIFLD.
OrthoDBiEOG6N6815.

Enzyme and pathway databases

UniPathwayiUPA00070; UER00120.
BioCyciSACI56780:GHXT-282-MONOMER.

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]
ProtoNetiSearch...

Publicationsi

  1. "The genome of the syntrophic bacterium Syntrophus aciditrophicus: Life dependent on negative change in electrical potential."
    Gunsalus R., Rohlin L., Kim U., Krupp R., Bhattacharyya A., Campbell J., Mclerney M., Moutakki H., Rio-Hernandez L.
    Submitted (DEC-2005) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: SB.

Entry informationi

Entry nameiPYRF_SYNAS
AccessioniPrimary (citable) accession number: Q2LQ82
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 27, 2006
Last sequence update: February 21, 2006
Last modified: April 1, 2015
This is version 59 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.