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Q3J8N5

- PYRF_NITOC

UniProt

Q3J8N5 - PYRF_NITOC

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Protein
Orotidine 5'-phosphate decarboxylase
Gene
pyrF, Noc_2353
Organism
Nitrosococcus oceani (strain ATCC 19707 / NCIMB 11848)
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 sitei62 – 621Proton donor By similarity
Binding sitei119 – 1191Substrate By similarity
Binding sitei180 – 1801Substrate By similarity
Binding sitei189 – 1891Substrate By similarity
Binding sitei209 – 2091Substrate; via amide nitrogen By similarity
Binding sitei210 – 2101Substrate 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

BioCyciNOCE323261:GCI3-2396-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:Noc_2353
OrganismiNitrosococcus oceani (strain ATCC 19707 / NCIMB 11848)
Taxonomic identifieri323261 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaChromatialesChromatiaceaeNitrosococcus
ProteomesiUP000006838: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 232232Orotidine 5'-phosphate decarboxylaseUniRule annotation
PRO_0000241880Add
BLAST

Interactioni

Subunit structurei

Homodimer By similarity.UniRule annotation

Protein-protein interaction databases

STRINGi323261.Noc_2353.

Structurei

3D structure databases

ProteinModelPortaliQ3J8N5.
SMRiQ3J8N5. Positions 1-229.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni60 – 6910Substrate binding By similarity

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG0284.
HOGENOMiHOG000226070.
KOiK01591.
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.

Q3J8N5-1 [UniParc]FASTAAdd to Basket

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MEKSRIIIAL DYPNEEQALS LVRQLDPAQC RLKVGKELFT RAGPSLVKRL    50
AAQGFPIFLD LKFHDIPHTV ARACLAAADL GVWMLNIHAL GGLSMMKAAQ 100
EALANHPSHP QLIAVTVLTS MDQAALSQIG LAGTPEDNVL QLALLTQEAG 150
LDGIVCSGQE APALRQTLGK EFLLVTPGIR PAGAAPKDQQ RVLTPREALA 200
KGANYLVIGR PITAAPDPMM ALRAIEAEIS NV 232
Length:232
Mass (Da):24,743
Last modified:June 27, 2006 - v2
Checksum:iB07F22D45EB25394
GO

Sequence cautioni

The sequence ABA58811.1 differs from that shown. Reason: Erroneous initiation.

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000127 Genomic DNA. Translation: ABA58811.1. Different initiation.
RefSeqiYP_344341.1. NC_007484.1.

Genome annotation databases

EnsemblBacteriaiABA58811; ABA58811; Noc_2353.
GeneIDi3704793.
KEGGinoc:Noc_2353.
PATRICi22709118. VBINitOce57959_2764.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000127 Genomic DNA. Translation: ABA58811.1 . Different initiation.
RefSeqi YP_344341.1. NC_007484.1.

3D structure databases

ProteinModelPortali Q3J8N5.
SMRi Q3J8N5. Positions 1-229.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 323261.Noc_2353.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ABA58811 ; ABA58811 ; Noc_2353 .
GeneIDi 3704793.
KEGGi noc:Noc_2353.
PATRICi 22709118. VBINitOce57959_2764.

Phylogenomic databases

eggNOGi COG0284.
HOGENOMi HOG000226070.
KOi K01591.
OrthoDBi EOG6N6815.

Enzyme and pathway databases

UniPathwayi UPA00070 ; UER00120 .
BioCyci NOCE323261:GCI3-2396-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

  1. "Complete genome sequence of the marine, chemolithoautotrophic, ammonia-oxidizing bacterium Nitrosococcus oceani ATCC 19707."
    Klotz M.G., Arp D.J., Chain P.S.G., El-Sheikh A.F., Hauser L.J., Hommes N.G., Larimer F.W., Malfatti S.A., Norton J.M., Poret-Peterson A.T., Vergez L.M., Ward B.B.
    Appl. Environ. Microbiol. 72:6299-6315(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 19707 / NCIMB 11848.

Entry informationi

Entry nameiPYRF_NITOC
AccessioniPrimary (citable) accession number: Q3J8N5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 27, 2006
Last sequence update: June 27, 2006
Last modified: May 14, 2014
This is version 59 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete 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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