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Q5FJB3

- PYRF_LACAC

UniProt

Q5FJB3 - PYRF_LACAC

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Protein
Orotidine 5'-phosphate decarboxylase
Gene
pyrF, LBA1386
Organism
Lactobacillus acidophilus (strain ATCC 700396 / NCK56 / N2 / NCFM)
Status
Reviewed - Annotation score: 3 out of 5 - Experimental evidence at protein leveli

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 sitei10 – 101Substrate By similarity
Binding sitei33 – 331Substrate By similarity
Active sitei62 – 621Proton donor By similarity
Binding sitei123 – 1231Substrate By similarity
Binding sitei185 – 1851Substrate By similarity
Binding sitei194 – 1941Substrate By similarity
Binding sitei214 – 2141Substrate; via amide nitrogen By similarity
Binding sitei215 – 2151Substrate 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

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:LBA1386
OrganismiLactobacillus acidophilus (strain ATCC 700396 / NCK56 / N2 / NCFM)
Taxonomic identifieri272621 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliLactobacillalesLactobacillaceaeLactobacillus
ProteomesiUP000006381: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 235235Orotidine 5'-phosphate decarboxylaseUniRule annotation
PRO_0000241868Add
BLAST

Interactioni

Subunit structurei

Homodimer By similarity.UniRule annotation

Protein-protein interaction databases

STRINGi272621.LBA1386.

Structurei

Secondary structure

Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi5 – 84
Helixi14 – 229
Helixi27 – 293
Beta strandi31 – 344
Helixi36 – 427
Helixi44 – 529
Beta strandi56 – 638
Helixi67 – 7812
Turni79 – 813
Beta strandi83 – 886
Helixi89 – 913
Helixi93 – 10614
Beta strandi115 – 1195
Helixi127 – 1326
Beta strandi136 – 1383
Helixi140 – 15314
Beta strandi158 – 1603
Helixi163 – 1653
Helixi166 – 1738
Beta strandi175 – 1817
Helixi200 – 2056
Beta strandi209 – 2135
Helixi215 – 2184
Beta strandi220 – 2223
Helixi223 – 23412

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3TFXX-ray2.19A/B1-235[»]
ProteinModelPortaliQ5FJB3.

Family & Domainsi

Region

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

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG0284.
HOGENOMiHOG000226071.
KOiK01591.
OMAiRPITQSA.
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.

Q5FJB3-1 [UniParc]FASTAAdd to Basket

« Hide

MDRPVIVALD LDNEEQLNKI LSKLGDPHDV FVKVGMELFY NAGIDVIKKL    50
TQQGYKIFLD LKMHDIPNTV YNGAKALAKL GITFTTVHAL GGSQMIKSAK 100
DGLIAGTPAG HSVPKLLAVT ELTSISDDVL RNEQNCRLPM AEQVLSLAKM 150
AKHSGADGVI CSPLEVKKLH ENIGDDFLYV TPGIRPAGNA KDDQSRVATP 200
KMAKEWGSSA IVVGRPITLA SDPKAAYEAI KKEFN 235
Length:235
Mass (Da):25,404
Last modified:March 1, 2005 - v1
Checksum:i892076F9C45D7B1F
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000033 Genomic DNA. Translation: AAV43211.1.
RefSeqiYP_194242.1. NC_006814.3.

Genome annotation databases

EnsemblBacteriaiAAV43211; AAV43211; LBA1386.
GeneIDi3252592.
KEGGilac:LBA1386.
PATRICi22197796. VBILacAci7974_1311.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000033 Genomic DNA. Translation: AAV43211.1 .
RefSeqi YP_194242.1. NC_006814.3.

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
3TFX X-ray 2.19 A/B 1-235 [» ]
ProteinModelPortali Q5FJB3.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 272621.LBA1386.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AAV43211 ; AAV43211 ; LBA1386 .
GeneIDi 3252592.
KEGGi lac:LBA1386.
PATRICi 22197796. VBILacAci7974_1311.

Phylogenomic databases

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

Enzyme and pathway databases

UniPathwayi UPA00070 ; UER00120 .

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. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 700396 / NCK56 / N2 / NCFM.

Entry informationi

Entry nameiPYRF_LACAC
AccessioniPrimary (citable) accession number: Q5FJB3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 27, 2006
Last sequence update: March 1, 2005
Last modified: May 14, 2014
This is version 62 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

3D-structure, Complete proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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