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B6JPA4

- PYRF_HELP2

UniProt

B6JPA4 - PYRF_HELP2

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Protein

Orotidine 5'-phosphate decarboxylase

Gene

pyrF

Organism
Helicobacter pylori (strain P12)
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 sitei8 – 81SubstrateUniRule annotation
Binding sitei30 – 301SubstrateUniRule annotation
Active sitei61 – 611Proton donorUniRule annotation
Binding sitei118 – 1181SubstrateUniRule annotation
Binding sitei178 – 1781SubstrateUniRule annotation
Binding sitei187 – 1871SubstrateUniRule annotation
Binding sitei207 – 2071Substrate; via amide nitrogenUniRule annotation
Binding sitei208 – 2081SubstrateUniRule 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

BioCyciHPYL570508:GJ8D-5-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:HPP12_0005
OrganismiHelicobacter pylori (strain P12)
Taxonomic identifieri570508 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaEpsilonproteobacteriaCampylobacteralesHelicobacteraceaeHelicobacter
ProteomesiUP000008198: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 227227Orotidine 5'-phosphate decarboxylasePRO_1000138533Add
BLAST

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi570508.HPP12_0005.

Structurei

3D structure databases

ProteinModelPortaliB6JPA4.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni59 – 6810Substrate bindingUniRule annotation

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiCOG0284.
HOGENOMiHOG000226071.
KOiK01591.
OMAiHAKEPRE.
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.

B6JPA4-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MQLCVALDLE KKEDNLSLLQ ELKGLDLWAK VGLRSFIRDG AVFLDEIRKI
60 70 80 90 100
DGNFKIFLDL KLYDIPYTMA NAALECAKLE VDMLTVHLSS AKSALTILMQ
110 120 130 140 150
RLNALKKRPL IMGVSALTSF SEEEFLMVYN APLKTQAIKL SAMGKESGID
160 170 180 190 200
GVVCSVFESL AVKEALGKDF LTLTPGIRLD KSDKEDQERV ANAKEAKQNL
210 220
SDFIVVGRPI YHAKEPREVV LELLKDC
Length:227
Mass (Da):25,322
Last modified:December 16, 2008 - v1
Checksum:i7B59E0CAF06580F3
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP001217 Genomic DNA. Translation: ACJ07165.1.
RefSeqiYP_002300645.1. NC_011498.1.

Genome annotation databases

EnsemblBacteriaiACJ07165; ACJ07165; HPP12_0005.
GeneIDi7010368.
KEGGihpp:HPP12_0005.
PATRICi20607903. VBIHelPyl2824_0005.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP001217 Genomic DNA. Translation: ACJ07165.1 .
RefSeqi YP_002300645.1. NC_011498.1.

3D structure databases

ProteinModelPortali B6JPA4.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 570508.HPP12_0005.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ACJ07165 ; ACJ07165 ; HPP12_0005 .
GeneIDi 7010368.
KEGGi hpp:HPP12_0005.
PATRICi 20607903. VBIHelPyl2824_0005.

Phylogenomic databases

eggNOGi COG0284.
HOGENOMi HOG000226071.
KOi K01591.
OMAi HAKEPRE.
OrthoDBi EOG6N6815.

Enzyme and pathway databases

UniPathwayi UPA00070 ; UER00120 .
BioCyci HPYL570508:GJ8D-5-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. "The complete genome sequence of Helicobacter pylori strain P12."
    Fischer W., Windhager L., Karnholz A., Zeiller M., Zimmer R., Haas R.
    Submitted (OCT-2008) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: P12.

Entry informationi

Entry nameiPYRF_HELP2
AccessioniPrimary (citable) accession number: B6JPA4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 14, 2009
Last sequence update: December 16, 2008
Last modified: October 1, 2014
This is version 37 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