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O29333

- PYRF_ARCFU

UniProt

O29333 - PYRF_ARCFU

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Protein

Orotidine 5'-phosphate decarboxylase

Gene

pyrF

Organism
Archaeoglobus fulgidus (strain ATCC 49558 / VC-16 / DSM 4304 / JCM 9628 / NBRC 100126)
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).UniRule annotation

Catalytic activityi

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

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei9 – 91SubstrateUniRule annotation
Binding sitei31 – 311SubstrateUniRule annotation
Active sitei59 – 591Proton donorUniRule annotation
Binding sitei114 – 1141SubstrateUniRule annotation
Binding sitei187 – 1871Substrate; via amide nitrogenUniRule annotation
Binding sitei188 – 1881SubstrateUniRule 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

BioCyciAFUL224325:GJBC-951-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:AF_0929
OrganismiArchaeoglobus fulgidus (strain ATCC 49558 / VC-16 / DSM 4304 / JCM 9628 / NBRC 100126)
Taxonomic identifieri224325 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaArchaeoglobiArchaeoglobalesArchaeoglobaceaeArchaeoglobus
ProteomesiUP000002199: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 209209Orotidine 5'-phosphate decarboxylasePRO_0000134608Add
BLAST

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi224325.AF0929.

Structurei

Secondary structure

1
209
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi3 – 75
Helixi13 – 2311
Helixi24 – 263
Beta strandi28 – 336
Helixi34 – 407
Helixi44 – 496
Beta strandi54 – 607
Helixi64 – 7613
Beta strandi80 – 856
Helixi86 – 883
Helixi90 – 10213
Beta strandi106 – 1105
Helixi116 – 1194
Helixi122 – 13615
Beta strandi140 – 1423
Helixi148 – 15811
Beta strandi162 – 1654
Beta strandi169 – 1713
Helixi175 – 1795
Beta strandi182 – 1876
Helixi188 – 1914
Beta strandi192 – 1943
Helixi196 – 20712

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4MUZX-ray1.39A/B1-209[»]
4N2YX-ray1.55A/B/C/D1-209[»]
ProteinModelPortaliO29333.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni57 – 6610Substrate bindingUniRule annotation
Regioni166 – 17611Substrate bindingUniRule annotationAdd
BLAST

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiCOG0284.
KOiK01591.
OMAiRIAFENS.

Family and domain databases

Gene3Di3.20.20.70. 1 hit.
HAMAPiMF_01200_A. OMPdecase_type1_A.
InterProiIPR013785. Aldolase_TIM.
IPR014732. OMPdecase.
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.

Sequencei

Sequence statusi: Complete.

O29333-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MKQLILALDV MDGEKAMEIA KKVAEHVDRI KVNYPLVLSA GVGIMKRLSE
60 70 80 90 100
IKPVIADFKI ADVPYTSSLI ARIAFENSAE SVIVHGFVGS DTLREVCRVA
110 120 130 140 150
EEFGGKVYAV TELSSPGGEE FMSAVSLKIV EKAKEAGCHG LIAPSTRIER
160 170 180 190 200
LREIRKAAGD MEILCPGIGA QKGSIEAVKY ADGIIVGRGI YASGNPAEEA

RKLRRVLKI
Length:209
Mass (Da):22,538
Last modified:January 23, 2002 - v2
Checksum:iC6CBB39E9C105B66
GO

Sequence cautioni

The sequence AAB90309.1 differs from that shown. Reason: Erroneous initiation.

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AE000782 Genomic DNA. Translation: AAB90309.1. Different initiation.
PIRiA69366.
RefSeqiNP_069762.1. NC_000917.1.

Genome annotation databases

EnsemblBacteriaiAAB90309; AAB90309; AF_0929.
GeneIDi1484152.
KEGGiafu:AF0929.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AE000782 Genomic DNA. Translation: AAB90309.1 . Different initiation.
PIRi A69366.
RefSeqi NP_069762.1. NC_000917.1.

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
4MUZ X-ray 1.39 A/B 1-209 [» ]
4N2Y X-ray 1.55 A/B/C/D 1-209 [» ]
ProteinModelPortali O29333.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 224325.AF0929.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AAB90309 ; AAB90309 ; AF_0929 .
GeneIDi 1484152.
KEGGi afu:AF0929.

Phylogenomic databases

eggNOGi COG0284.
KOi K01591.
OMAi RIAFENS.

Enzyme and pathway databases

UniPathwayi UPA00070 ; UER00120 .
BioCyci AFUL224325:GJBC-951-MONOMER.

Family and domain databases

Gene3Di 3.20.20.70. 1 hit.
HAMAPi MF_01200_A. OMPdecase_type1_A.
InterProi IPR013785. Aldolase_TIM.
IPR014732. OMPdecase.
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.
ProtoNeti Search...

Publicationsi

  1. "The complete genome sequence of the hyperthermophilic, sulphate-reducing archaeon Archaeoglobus fulgidus."
    Klenk H.-P., Clayton R.A., Tomb J.-F., White O., Nelson K.E., Ketchum K.A., Dodson R.J., Gwinn M.L., Hickey E.K., Peterson J.D., Richardson D.L., Kerlavage A.R., Graham D.E., Kyrpides N.C., Fleischmann R.D., Quackenbush J., Lee N.H., Sutton G.G.
    , Gill S.R., Kirkness E.F., Dougherty B.A., McKenney K., Adams M.D., Loftus B.J., Peterson S.N., Reich C.I., McNeil L.K., Badger J.H., Glodek A., Zhou L., Overbeek R., Gocayne J.D., Weidman J.F., McDonald L.A., Utterback T.R., Cotton M.D., Spriggs T., Artiach P., Kaine B.P., Sykes S.M., Sadow P.W., D'Andrea K.P., Bowman C., Fujii C., Garland S.A., Mason T.M., Olsen G.J., Fraser C.M., Smith H.O., Woese C.R., Venter J.C.
    Nature 390:364-370(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 49558 / VC-16 / DSM 4304 / JCM 9628 / NBRC 100126.

Entry informationi

Entry nameiPYRF_ARCFU
AccessioniPrimary (citable) accession number: O29333
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 30, 2000
Last sequence update: January 23, 2002
Last modified: October 1, 2014
This is version 93 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

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