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B2RME4

- PYRF_PORG3

UniProt

B2RME4 - PYRF_PORG3

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Protein
Orotidine 5'-phosphate decarboxylase
Gene
pyrF, PGN_2021
Organism
Porphyromonas gingivalis (strain ATCC 33277 / DSM 20709 / JCM 12257)
Status
Reviewed - Annotation score: 2 out of 5 - Protein inferred from homologyi

Functioni

Catalytic activityi

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

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei96 – 961Proton donor 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

BioCyciPGIN431947:GC9J-2076-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:PGN_2021
OrganismiPorphyromonas gingivalis (strain ATCC 33277 / DSM 20709 / JCM 12257)
Taxonomic identifieri431947 [NCBI]
Taxonomic lineageiBacteriaBacteroidetesBacteroidiaBacteroidalesPorphyromonadaceaePorphyromonas
ProteomesiUP000008842: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 276276Orotidine 5'-phosphate decarboxylaseUniRule annotation
PRO_1000138958Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi431947.PGN_2021.

Structurei

3D structure databases

ProteinModelPortaliB2RME4.

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG0284.
HOGENOMiHOG000245747.
KOiK01591.
OMAiCRTSNAG.
OrthoDBiEOG6DZF33.

Family and domain databases

Gene3Di3.20.20.70. 1 hit.
HAMAPiMF_01215. OMPdecase_type2.
InterProiIPR013785. Aldolase_TIM.
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.

Sequencei

Sequence statusi: Complete.

B2RME4-1 [UniParc]FASTAAdd to Basket

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MTTKELFDRI CRKRSFLCVG LDTDVKKIPP HLLNEDDPIL AFNKAIIDAT    50
AEYCVAFKPN MAFYESMGSF GAHSFEKTIE YIRERYPDQF IIADAKRGDI 100
GNTSDMYARS FFEHLKVDAL TVSPYMGEDS ISPFLSYAGK FTVLLALTSN 150
KGSQDFQMMR DADGEYLFER VIRISQTWDN AGQLMYVVGA TQASMLKDIR 200
EIVPDAFLLV PGVGAQGGSL EDVAEYGMNA HCGLLVNASR SIIYADNTEG 250
FAAKAAGEAA AMQRQMEIAL RAKGLI 276
Length:276
Mass (Da):30,558
Last modified:July 1, 2008 - v1
Checksum:i626DD3BDDC3E168D
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AP009380 Genomic DNA. Translation: BAG34539.1.
RefSeqiYP_001930136.1. NC_010729.1.

Genome annotation databases

EnsemblBacteriaiBAG34539; BAG34539; PGN_2021.
GeneIDi6330780.
KEGGipgn:PGN_2021.
PATRICi22976995. VBIPorGin26334_1985.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AP009380 Genomic DNA. Translation: BAG34539.1 .
RefSeqi YP_001930136.1. NC_010729.1.

3D structure databases

ProteinModelPortali B2RME4.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 431947.PGN_2021.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai BAG34539 ; BAG34539 ; PGN_2021 .
GeneIDi 6330780.
KEGGi pgn:PGN_2021.
PATRICi 22976995. VBIPorGin26334_1985.

Phylogenomic databases

eggNOGi COG0284.
HOGENOMi HOG000245747.
KOi K01591.
OMAi CRTSNAG.
OrthoDBi EOG6DZF33.

Enzyme and pathway databases

UniPathwayi UPA00070 ; UER00120 .
BioCyci PGIN431947:GC9J-2076-MONOMER.

Family and domain databases

Gene3Di 3.20.20.70. 1 hit.
HAMAPi MF_01215. OMPdecase_type2.
InterProi IPR013785. Aldolase_TIM.
IPR011995. OMPdecase_type-2.
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 TIGR02127. pyrF_sub2. 1 hit.
ProtoNeti Search...

Publicationsi

  1. "Determination of the genome sequence of Porphyromonas gingivalis strain ATCC 33277 and genomic comparison with strain W83 revealed extensive genome rearrangements in P. gingivalis."
    Naito M., Hirakawa H., Yamashita A., Ohara N., Shoji M., Yukitake H., Nakayama K., Toh H., Yoshimura F., Kuhara S., Hattori M., Hayashi T., Nakayama K.
    DNA Res. 15:215-225(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 33277 / DSM 20709 / JCM 12257.

Entry informationi

Entry nameiPYRF_PORG3
AccessioniPrimary (citable) accession number: B2RME4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 14, 2009
Last sequence update: July 1, 2008
Last modified: May 14, 2014
This is version 42 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

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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