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Q9WYG7

- PYRF_THEMA

UniProt

Q9WYG7 - PYRF_THEMA

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Protein

Orotidine 5'-phosphate decarboxylase

Gene

pyrF

Organism
Thermotoga maritima (strain ATCC 43589 / MSB8 / DSM 3109 / JCM 10099)
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

Catalytic activityi

Orotidine 5'-phosphate = UMP + CO2.PROSITE-ProRule annotation

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei8 – 81SubstrateBy similarity
Binding sitei26 – 261SubstrateBy similarity
Active sitei54 – 541Proton donorPROSITE-ProRule annotation
Binding sitei106 – 1061SubstrateBy similarity
Binding sitei153 – 1531SubstrateBy similarity
Binding sitei161 – 1611SubstrateBy similarity
Binding sitei180 – 1801Substrate; via amide nitrogenBy similarity
Binding sitei181 – 1811SubstrateBy similarity

GO - Molecular functioni

  1. orotidine-5'-phosphate decarboxylase activity Source: UniProtKB-EC

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

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:TM_0332
OrganismiThermotoga maritima (strain ATCC 43589 / MSB8 / DSM 3109 / JCM 10099)
Taxonomic identifieri243274 [NCBI]
Taxonomic lineageiBacteriaThermotogaeThermotogalesThermotogaceaeThermotoga
ProteomesiUP000008183: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 201201Orotidine 5'-phosphate decarboxylasePRO_0000134595Add
BLAST

Interactioni

Subunit structurei

Homodimer.1 Publication

Protein-protein interaction databases

STRINGi243274.TM0332.

Structurei

Secondary structure

1
201
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi2 – 65
Beta strandi9 – 113
Helixi12 – 198
Beta strandi23 – 275
Helixi29 – 324
Helixi37 – 437
Turni44 – 463
Beta strandi48 – 558
Helixi59 – 6911
Beta strandi74 – 807
Helixi81 – 833
Helixi85 – 9410
Beta strandi96 – 1027
Helixi112 – 12413
Beta strandi128 – 1303
Helixi133 – 1397
Turni140 – 1423
Beta strandi147 – 1493
Helixi167 – 1704
Turni171 – 1733
Beta strandi175 – 1806
Helixi181 – 1844
Helixi189 – 1968

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1VQTX-ray2.00A1-201[»]
ProteinModelPortaliQ9WYG7.
SMRiQ9WYG7. Positions 1-198.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9WYG7.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni52 – 6110Substrate bindingBy similarity

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG0284.
InParanoidiQ9WYG7.
KOiK01591.
OMAiARSIKSW.
OrthoDBiEOG6N6815.

Family and domain databases

Gene3Di3.20.20.70. 1 hit.
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.

Q9WYG7 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MTPVLSLDME DPIRFIDENG SFEVVKVGHN LAIHGKKIFD ELAKRNLKII
60 70 80 90 100
LDLKFCDIPS TVERSIKSWD HPAIIGFTVH SCAGYESVER ALSATDKHVF
110 120 130 140 150
VVVKLTSMEG SLEDYMDRIE KLNKLGCDFV LPGPWAKALR EKIKGKILVP
160 170 180 190 200
GIRMEVKADD QKDVVTLEEM KGIANFAVLG REIYLSENPR EKIKRIKEMR

L
Length:201
Mass (Da):22,809
Last modified:November 1, 1999 - v1
Checksum:i4C2FAD77302F206D
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AE000512 Genomic DNA. Translation: AAD35419.1.
PIRiF72390.
RefSeqiNP_228143.1. NC_000853.1.
WP_004083099.1. NC_023151.1.
YP_007976680.1. NC_021214.1.
YP_008990695.1. NC_023151.1.

Genome annotation databases

EnsemblBacteriaiAAD35419; AAD35419; TM_0332.
GeneIDi18092466.
897284.
KEGGitma:TM0332.
tmi:THEMA_03060.
tmm:Tmari_0330.
PATRICi23935545. VBITheMar51294_0337.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AE000512 Genomic DNA. Translation: AAD35419.1 .
PIRi F72390.
RefSeqi NP_228143.1. NC_000853.1.
WP_004083099.1. NC_023151.1.
YP_007976680.1. NC_021214.1.
YP_008990695.1. NC_023151.1.

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
1VQT X-ray 2.00 A 1-201 [» ]
ProteinModelPortali Q9WYG7.
SMRi Q9WYG7. Positions 1-198.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 243274.TM0332.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AAD35419 ; AAD35419 ; TM_0332 .
GeneIDi 18092466.
897284.
KEGGi tma:TM0332.
tmi:THEMA_03060.
tmm:Tmari_0330.
PATRICi 23935545. VBITheMar51294_0337.

Phylogenomic databases

eggNOGi COG0284.
InParanoidi Q9WYG7.
KOi K01591.
OMAi ARSIKSW.
OrthoDBi EOG6N6815.

Enzyme and pathway databases

UniPathwayi UPA00070 ; UER00120 .

Miscellaneous databases

EvolutionaryTracei Q9WYG7.

Family and domain databases

Gene3Di 3.20.20.70. 1 hit.
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

« Hide 'large scale' publications
  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 43589 / MSB8 / DSM 3109 / JCM 10099.
  2. "Crystal Structure of orotidine 5'-phosphate decarboxylase (TM0332) from Thermotoga maritima at 2.00 A resolution."
    Joint center for structural genomics (JCSG)
    Submitted (JAN-2005) to the PDB data bank
    Cited for: X-RAY CRYSTALLOGRAPHY (2.0 ANGSTROMS), SUBUNIT.

Entry informationi

Entry nameiPYRF_THEMA
AccessioniPrimary (citable) accession number: Q9WYG7
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 30, 2000
Last sequence update: November 1, 1999
Last modified: October 29, 2014
This is version 105 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, Reference 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