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Protein

Uridine 5'-monophosphate synthase

Gene

UMPS1

Organism
Oryza sativa subsp. japonica (Rice)
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.

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei307 – 3071By similarity

GO - Molecular functioni

  1. orotate phosphoribosyltransferase activity Source: UniProtKB-EC
  2. 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, Glycosyltransferase, Lyase, Transferase

Keywords - Biological processi

Pyrimidine biosynthesis

Enzyme and pathway databases

ReactomeiREACT_303015. 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:UMPS1
Ordered Locus Names:Os01g0951200, LOC_Os01g72240
ORF Names:B1147A04.37, OsJ_04774
OrganismiOryza sativa subsp. japonica (Rice)
Taxonomic identifieri39947 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaLiliopsidaPoalesPoaceaeBEP cladeEhrhartoideaeOryzeaeOryza
ProteomesiUP000000763 Componenti: Chromosome 1

Organism-specific databases

GrameneiQ9LDN2.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 477477Uridine 5'-monophosphate synthasePRO_0000423081Add
BLAST

Proteomic databases

PRIDEiQ9LDN2.

Structurei

3D structure databases

ProteinModelPortaliQ9LDN2.
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.
InParanoidiQ9LDN2.
KOiK13421.
OMAiSMKPEFL.

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.

Q9LDN2-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MDAAAQESLI LELHAIEAIK FGTFVLKSGI TSPIYLDLRA LVSHPGLLSS
60 70 80 90 100
IATLLHTLPA TRPYDLLCGV PYTALPIASV LSVHRSVPMV MRRKEAKAHG
110 120 130 140 150
TAKSIEGAFR AGEAVLIIED LVTSGASVLE TAAPLRDQGL VVADAVVVVD
160 170 180 190 200
REQGGRENLA ANGITLHSLM TLTEVLAVLL KHGKVTEEKA REVRQFLDAN
210 220 230 240 250
RKVTVPGAAG AVKPKAVRKG FAERAGLAKN PMGKRLFEVM EAKQSNLCVA
260 270 280 290 300
ADVGTAKELL ELAEKVGPEI CMLKTHVDIL SDFTPDFGAK LCSIAEKHNF
310 320 330 340 350
LIFEDRKFAD IGNTVTMQYE GGIFRILDWA DIVNAHIIPG PGIVDGLKLK
360 370 380 390 400
GLPKGRGLLL LAEMSSAGNL AHGEYTAAAV KIAEQHSDFV IGFISVNPAS
410 420 430 440 450
WSVAPSSPAF IHATPGVQMV SGGDALGQQY NTPHSVINDR GSDIIIVGRG
460 470
IIKASNPAET AREYRIQGWG AYQSSLP
Length:477
Mass (Da):50,804
Last modified:September 30, 2000 - v1
Checksum:i79DC3983BE8F8DC2
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB031395 mRNA. Translation: BAA92171.1.
AP003735 Genomic DNA. Translation: BAB86207.1.
AP008207 Genomic DNA. Translation: BAF07326.1.
CM000138 Genomic DNA. Translation: EEE56010.1.
AF210322 mRNA. Translation: AAF61489.1.
RefSeqiNP_001045412.1. NM_001051947.1.
UniGeneiOs.4468.

Genome annotation databases

EnsemblPlantsiOS01T0951200-01; OS01T0951200-01; OS01G0951200.
GeneIDi4325739.
KEGGiosa:4325739.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB031395 mRNA. Translation: BAA92171.1.
AP003735 Genomic DNA. Translation: BAB86207.1.
AP008207 Genomic DNA. Translation: BAF07326.1.
CM000138 Genomic DNA. Translation: EEE56010.1.
AF210322 mRNA. Translation: AAF61489.1.
RefSeqiNP_001045412.1. NM_001051947.1.
UniGeneiOs.4468.

3D structure databases

ProteinModelPortaliQ9LDN2.
ModBaseiSearch...
MobiDBiSearch...

Proteomic databases

PRIDEiQ9LDN2.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiOS01T0951200-01; OS01T0951200-01; OS01G0951200.
GeneIDi4325739.
KEGGiosa:4325739.

Organism-specific databases

GrameneiQ9LDN2.

Phylogenomic databases

eggNOGiCOG0284.
InParanoidiQ9LDN2.
KOiK13421.
OMAiSMKPEFL.

Enzyme and pathway databases

UniPathwayiUPA00070; UER00119.
UPA00070; UER00120.
ReactomeiREACT_303015. Pyrimidine biosynthesis.

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

« Hide 'large scale' publications
  1. "Oryza sativa UMPS1 mRNA for UMP synthase."
    Ito Y.
    Submitted (JUL-1999) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    Strain: cv. Nipponbare.
  2. "The genome sequence and structure of rice chromosome 1."
    Sasaki T., Matsumoto T., Yamamoto K., Sakata K., Baba T., Katayose Y., Wu J., Niimura Y., Cheng Z., Nagamura Y., Antonio B.A., Kanamori H., Hosokawa S., Masukawa M., Arikawa K., Chiden Y., Hayashi M., Okamoto M.
    , Ando T., Aoki H., Arita K., Hamada M., Harada C., Hijishita S., Honda M., Ichikawa Y., Idonuma A., Iijima M., Ikeda M., Ikeno M., Ito S., Ito T., Ito Y., Ito Y., Iwabuchi A., Kamiya K., Karasawa W., Katagiri S., Kikuta A., Kobayashi N., Kono I., Machita K., Maehara T., Mizuno H., Mizubayashi T., Mukai Y., Nagasaki H., Nakashima M., Nakama Y., Nakamichi Y., Nakamura M., Namiki N., Negishi M., Ohta I., Ono N., Saji S., Sakai K., Shibata M., Shimokawa T., Shomura A., Song J., Takazaki Y., Terasawa K., Tsuji K., Waki K., Yamagata H., Yamane H., Yoshiki S., Yoshihara R., Yukawa K., Zhong H., Iwama H., Endo T., Ito H., Hahn J.H., Kim H.-I., Eun M.-Y., Yano M., Jiang J., Gojobori T.
    Nature 420:312-316(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Nipponbare.
  3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Nipponbare.
  4. "The rice annotation project database (RAP-DB): 2008 update."
    The rice annotation project (RAP)
    Nucleic Acids Res. 36:D1028-D1033(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: GENOME REANNOTATION.
    Strain: cv. Nipponbare.
  5. "The genomes of Oryza sativa: a history of duplications."
    Yu J., Wang J., Lin W., Li S., Li H., Zhou J., Ni P., Dong W., Hu S., Zeng C., Zhang J., Zhang Y., Li R., Xu Z., Li S., Li X., Zheng H., Cong L.
    , Lin L., Yin J., Geng J., Li G., Shi J., Liu J., Lv H., Li J., Wang J., Deng Y., Ran L., Shi X., Wang X., Wu Q., Li C., Ren X., Wang J., Wang X., Li D., Liu D., Zhang X., Ji Z., Zhao W., Sun Y., Zhang Z., Bao J., Han Y., Dong L., Ji J., Chen P., Wu S., Liu J., Xiao Y., Bu D., Tan J., Yang L., Ye C., Zhang J., Xu J., Zhou Y., Yu Y., Zhang B., Zhuang S., Wei H., Liu B., Lei M., Yu H., Li Y., Xu H., Wei S., He X., Fang L., Zhang Z., Zhang Y., Huang X., Su Z., Tong W., Li J., Tong Z., Li S., Ye J., Wang L., Fang L., Lei T., Chen C.-S., Chen H.-C., Xu Z., Li H., Huang H., Zhang F., Xu H., Li N., Zhao C., Li S., Dong L., Huang Y., Li L., Xi Y., Qi Q., Li W., Zhang B., Hu W., Zhang Y., Tian X., Jiao Y., Liang X., Jin J., Gao L., Zheng W., Hao B., Liu S.-M., Wang W., Yuan L., Cao M., McDermott J., Samudrala R., Wang J., Wong G.K.-S., Yang H.
    PLoS Biol. 3:266-281(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Nipponbare.
  6. "Characterization of a cDNA encoding UMP synthase from rice."
    Park S., Thornburg R.W.
    Plant Gene Register PGR00-043
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 162-477.
    Strain: cv. Nipponbare.

Entry informationi

Entry nameiUMPS1_ORYSJ
AccessioniPrimary (citable) accession number: Q9LDN2
Secondary accession number(s): Q9M666
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 23, 2013
Last sequence update: September 30, 2000
Last modified: March 31, 2015
This is version 109 of the entry and version 1 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. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. Oryza sativa (rice)
    Index of Oryza sativa entries and their corresponding gene designations
  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.