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Protein

Uridine 5'-monophosphate synthase

Gene

PYRE-F

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at transcript leveli

Functioni

Catalytic activityi

Orotidine 5'-phosphate + diphosphate = orotate + 5-phospho-alpha-D-ribose 1-diphosphate.
Orotidine 5'-phosphate = UMP + CO2.

Pathway:iUMP biosynthesis via de novo pathway

This protein is involved in step 1 and 2 of the subpathway that synthesizes UMP from orotate.
Proteins known to be involved in the 2 steps of the subpathway in this organism are:
  1. Uridine 5'-monophosphate synthase (PYRE-F)
  2. Uridine 5'-monophosphate synthase (PYRE-F)
This subpathway is part of the pathway UMP biosynthesis via de novo pathway, which is itself part of Pyrimidine metabolism.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes UMP from orotate, the pathway UMP biosynthesis via de novo pathway and in Pyrimidine metabolism.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei305 – 3051By similarity

GO - Molecular functioni

GO - Biological processi

  • 'de novo' pyrimidine nucleobase biosynthetic process Source: InterPro
  • 'de novo' UMP biosynthetic process Source: UniProtKB-UniPathway
  • cellular response to phosphate starvation Source: TAIR
  • response to cadmium ion Source: TAIR

Keywords - Molecular functioni

Decarboxylase, Glycosyltransferase, Lyase, Transferase

Keywords - Biological processi

Pyrimidine biosynthesis

Enzyme and pathway databases

BioCyciARA:AT3G54470-MONOMER.
MetaCyc:AT3G54470-MONOMER.
ReactomeiREACT_286672. Pyrimidine biosynthesis.
UniPathwayiUPA00070; UER00119.
UPA00070; UER00120.

Names & Taxonomyi

Protein namesi
Recommended name:
Uridine 5'-monophosphate synthase
Short name:
UMP synthase
Including the following 2 domains:
Orotate phosphoribosyltransferase (EC:2.4.2.10)
Short name:
OPRTase
Orotidine 5'-phosphate decarboxylase (EC:4.1.1.23)
Alternative name(s):
OMPdecase
Gene namesi
Name:PYRE-F
Synonyms:UMPS
Ordered Locus Names:At3g54470
ORF Names:T14E10.40
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
ProteomesiUP000006548 Componenti: Chromosome 3

Organism-specific databases

TAIRiAT3G54470.

Subcellular locationi

GO - Cellular componenti

  • cytosol Source: TAIR

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 476476Uridine 5'-monophosphate synthasePRO_0000139653Add
BLAST

Proteomic databases

PaxDbiQ42586.
PRIDEiQ42586.

Interactioni

Protein-protein interaction databases

BioGridi9928. 1 interaction.
STRINGi3702.AT3G54470.1.

Structurei

3D structure databases

ProteinModelPortaliQ42586.
SMRiQ42586. Positions 7-198, 217-473.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

In the N-terminal section; belongs to the purine/pyrimidine phosphoribosyltransferase family.Curated
In the C-terminal section; belongs to the OMP decarboxylase family.Curated

Phylogenomic databases

eggNOGiCOG0284.
HOGENOMiHOG000213905.
KOiK13421.
OMAiMYRKAAW.
PhylomeDBiQ42586.

Family and domain databases

Gene3Di3.20.20.70. 1 hit.
3.40.50.2020. 1 hit.
HAMAPiMF_01208. PyrE.
InterProiIPR013785. Aldolase_TIM.
IPR014732. OMPdecase.
IPR018089. OMPdecase_AS.
IPR001754. OMPdeCOase_dom.
IPR023031. OPRT.
IPR004467. Or_phspho_trans_dom.
IPR000836. PRibTrfase_dom.
IPR029057. PRTase-like.
IPR011060. RibuloseP-bd_barrel.
[Graphical view]
PfamiPF00215. OMPdecase. 1 hit.
PF00156. Pribosyltran. 1 hit.
[Graphical view]
SMARTiSM00934. OMPdecase. 1 hit.
[Graphical view]
SUPFAMiSSF51366. SSF51366. 1 hit.
SSF53271. SSF53271. 1 hit.
TIGRFAMsiTIGR00336. pyrE. 1 hit.
TIGR01740. pyrF. 1 hit.
PROSITEiPS00156. OMPDECASE. 1 hit.
PS00103. PUR_PYR_PR_TRANSFER. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q42586-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSAMEALILQ LHEIGAVKFG NFKLKSGIFS PVYIDLRLIV SYPSLLTQIS
60 70 80 90 100
QTLISSLPPS ATFDVVCGVP YTALPIATVV SVSNGIPMLM RRKEIKDYGT
110 120 130 140 150
SKAIEGIFEK DQTCLIIEDL VTSGASVLET AAPLRAVGLK VSDAVVLIDR
160 170 180 190 200
QQGGRENLAE NGIKLHSMIM LTDMVRVLKE KGKIEVEVEV NLLKFLEENR
210 220 230 240 250
RVSVPSVEKP KPKPRVLGFK ERSELSKNPT GKKLFDIMLK KETNLCLAAD
260 270 280 290 300
VGTAAELLDI ADKVGPEICL LKTHVDILPD FTPDFGSKLR AIADKHKFLI
310 320 330 340 350
FEDRKFADIG NTVTMQYEGG IFKILEWADI INAHVISGPG IVDGLKLKGM
360 370 380 390 400
PRGRGLLLLA EMSSAGNLAT GDYTAAAVKI ADAHSDFVMG FISVNPASWK
410 420 430 440 450
CGYVYPSMIH ATPGVQMVKG GDALGQQYNT PHSVITERGS DIIIVGRGII
460 470
KAENPAETAH EYRVQGWNAY LEKCSQ
Length:476
Mass (Da):51,850
Last modified:June 6, 2002 - v2
Checksum:iF79AE7992503D928
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti186 – 1861V → E (PubMed:8041358).Curated
Sequence conflicti186 – 1861V → E (Ref. 2) Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X71842 mRNA. Translation: CAA50686.1.
AF276887 Genomic DNA. Translation: AAK69440.1.
AL138656 Genomic DNA. Translation: CAB77567.1.
CP002686 Genomic DNA. Translation: AEE79235.1.
AY140098 mRNA. Translation: AAM98239.1.
BT006612 mRNA. Translation: AAP31956.1.
PIRiS46440.
T47606.
RefSeqiNP_680130.1. NM_148875.4.
UniGeneiAt.108.

Genome annotation databases

EnsemblPlantsiAT3G54470.1; AT3G54470.1; AT3G54470.
GeneIDi824612.
KEGGiath:AT3G54470.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X71842 mRNA. Translation: CAA50686.1.
AF276887 Genomic DNA. Translation: AAK69440.1.
AL138656 Genomic DNA. Translation: CAB77567.1.
CP002686 Genomic DNA. Translation: AEE79235.1.
AY140098 mRNA. Translation: AAM98239.1.
BT006612 mRNA. Translation: AAP31956.1.
PIRiS46440.
T47606.
RefSeqiNP_680130.1. NM_148875.4.
UniGeneiAt.108.

3D structure databases

ProteinModelPortaliQ42586.
SMRiQ42586. Positions 7-198, 217-473.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi9928. 1 interaction.
STRINGi3702.AT3G54470.1.

Proteomic databases

PaxDbiQ42586.
PRIDEiQ42586.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT3G54470.1; AT3G54470.1; AT3G54470.
GeneIDi824612.
KEGGiath:AT3G54470.

Organism-specific databases

TAIRiAT3G54470.

Phylogenomic databases

eggNOGiCOG0284.
HOGENOMiHOG000213905.
KOiK13421.
OMAiMYRKAAW.
PhylomeDBiQ42586.

Enzyme and pathway databases

UniPathwayiUPA00070; UER00119.
UPA00070; UER00120.
BioCyciARA:AT3G54470-MONOMER.
MetaCyc:AT3G54470-MONOMER.
ReactomeiREACT_286672. Pyrimidine biosynthesis.

Miscellaneous databases

PROiQ42586.

Family and domain databases

Gene3Di3.20.20.70. 1 hit.
3.40.50.2020. 1 hit.
HAMAPiMF_01208. PyrE.
InterProiIPR013785. Aldolase_TIM.
IPR014732. OMPdecase.
IPR018089. OMPdecase_AS.
IPR001754. OMPdeCOase_dom.
IPR023031. OPRT.
IPR004467. Or_phspho_trans_dom.
IPR000836. PRibTrfase_dom.
IPR029057. PRTase-like.
IPR011060. RibuloseP-bd_barrel.
[Graphical view]
PfamiPF00215. OMPdecase. 1 hit.
PF00156. Pribosyltran. 1 hit.
[Graphical view]
SMARTiSM00934. OMPdecase. 1 hit.
[Graphical view]
SUPFAMiSSF51366. SSF51366. 1 hit.
SSF53271. SSF53271. 1 hit.
TIGRFAMsiTIGR00336. pyrE. 1 hit.
TIGR01740. pyrF. 1 hit.
PROSITEiPS00156. OMPDECASE. 1 hit.
PS00103. PUR_PYR_PR_TRANSFER. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "Heterospecific cloning of Arabidopsis thaliana cDNAs by direct complementation of pyrimidine auxotrophic mutants of Saccharomyces cerevisiae. I. Cloning and sequence analysis of two cDNAs catalysing the second, fifth and sixth steps of the de novo pyrimidine biosynthesis pathway."
    Nasr F., Bertauche N., Dufour M.E., Minet M., Lacroute F.
    Mol. Gen. Genet. 244:23-32(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
  2. "Transcriptional analysis of the Arabidopsis thaliana UMP synthase locus."
    Kafer C.W., Thornburg R.W.
    Submitted (JUN-2000) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE.
    Strain: cv. Columbia.
  3. "Sequence and analysis of chromosome 3 of the plant Arabidopsis thaliana."
    Salanoubat M., Lemcke K., Rieger M., Ansorge W., Unseld M., Fartmann B., Valle G., Bloecker H., Perez-Alonso M., Obermaier B., Delseny M., Boutry M., Grivell L.A., Mache R., Puigdomenech P., De Simone V., Choisne N., Artiguenave F.
    , Robert C., Brottier P., Wincker P., Cattolico L., Weissenbach J., Saurin W., Quetier F., Schaefer M., Mueller-Auer S., Gabel C., Fuchs M., Benes V., Wurmbach E., Drzonek H., Erfle H., Jordan N., Bangert S., Wiedelmann R., Kranz H., Voss H., Holland R., Brandt P., Nyakatura G., Vezzi A., D'Angelo M., Pallavicini A., Toppo S., Simionati B., Conrad A., Hornischer K., Kauer G., Loehnert T.-H., Nordsiek G., Reichelt J., Scharfe M., Schoen O., Bargues M., Terol J., Climent J., Navarro P., Collado C., Perez-Perez A., Ottenwaelder B., Duchemin D., Cooke R., Laudie M., Berger-Llauro C., Purnelle B., Masuy D., de Haan M., Maarse A.C., Alcaraz J.-P., Cottet A., Casacuberta E., Monfort A., Argiriou A., Flores M., Liguori R., Vitale D., Mannhaupt G., Haase D., Schoof H., Rudd S., Zaccaria P., Mewes H.-W., Mayer K.F.X., Kaul S., Town C.D., Koo H.L., Tallon L.J., Jenkins J., Rooney T., Rizzo M., Walts A., Utterback T., Fujii C.Y., Shea T.P., Creasy T.H., Haas B., Maiti R., Wu D., Peterson J., Van Aken S., Pai G., Militscher J., Sellers P., Gill J.E., Feldblyum T.V., Preuss D., Lin X., Nierman W.C., Salzberg S.L., White O., Venter J.C., Fraser C.M., Kaneko T., Nakamura Y., Sato S., Kato T., Asamizu E., Sasamoto S., Kimura T., Idesawa K., Kawashima K., Kishida Y., Kiyokawa C., Kohara M., Matsumoto M., Matsuno A., Muraki A., Nakayama S., Nakazaki N., Shinpo S., Takeuchi C., Wada T., Watanabe A., Yamada M., Yasuda M., Tabata S.
    Nature 408:820-822(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Columbia.
  4. The Arabidopsis Information Resource (TAIR)
    Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases
    Cited for: GENOME REANNOTATION.
    Strain: cv. Columbia.
  5. "Empirical analysis of transcriptional activity in the Arabidopsis genome."
    Yamada K., Lim J., Dale J.M., Chen H., Shinn P., Palm C.J., Southwick A.M., Wu H.C., Kim C.J., Nguyen M., Pham P.K., Cheuk R.F., Karlin-Newmann G., Liu S.X., Lam B., Sakano H., Wu T., Yu G.
    , Miranda M., Quach H.L., Tripp M., Chang C.H., Lee J.M., Toriumi M.J., Chan M.M., Tang C.C., Onodera C.S., Deng J.M., Akiyama K., Ansari Y., Arakawa T., Banh J., Banno F., Bowser L., Brooks S.Y., Carninci P., Chao Q., Choy N., Enju A., Goldsmith A.D., Gurjal M., Hansen N.F., Hayashizaki Y., Johnson-Hopson C., Hsuan V.W., Iida K., Karnes M., Khan S., Koesema E., Ishida J., Jiang P.X., Jones T., Kawai J., Kamiya A., Meyers C., Nakajima M., Narusaka M., Seki M., Sakurai T., Satou M., Tamse R., Vaysberg M., Wallender E.K., Wong C., Yamamura Y., Yuan S., Shinozaki K., Davis R.W., Theologis A., Ecker J.R.
    Science 302:842-846(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: cv. Columbia.

Entry informationi

Entry nameiUMPS_ARATH
AccessioniPrimary (citable) accession number: Q42586
Secondary accession number(s): Q9M1I0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: June 6, 2002
Last modified: July 22, 2015
This is version 116 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Multifunctional enzyme, Reference proteome

Documents

  1. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  2. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  3. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.