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P12758 (UDP_ECOLI) Reviewed, UniProtKB/Swiss-Prot

Last modified July 9, 2014. Version 146. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (4) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Uridine phosphorylase

Short name=UPase
Short name=UrdPase
EC=2.4.2.3
Gene names
Name:udp
Ordered Locus Names:b3831, JW3808
OrganismEscherichia coli (strain K12) [Reference proteome] [HAMAP]
Taxonomic identifier83333 [NCBI]
Taxonomic lineageBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia

Protein attributes

Sequence length253 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

Catalyzes the reversible phosphorylytic cleavage of uridine and deoxyuridine to uracil and ribose- or deoxyribose-1-phosphate. The produced molecules are then utilized as carbon and energy sources or in the rescue of pyrimidine bases for nucleotide synthesis.

Catalytic activity

Uridine + phosphate = uracil + alpha-D-ribose 1-phosphate.

Pathway

Pyrimidine metabolism; UMP biosynthesis via salvage pathway; uracil from uridine (phosphorylase route): step 1/1.

Subunit structure

Homohexamer. The homohexamer shows 4-fold, 6-fold or 8-fold symmetry.

Subcellular location

Cytoplasm.

Sequence similarities

Belongs to the PNP/UDP phosphorylase family.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Initiator methionine11Removed Ref.5 Ref.6 Ref.7
Chain2 – 253252Uridine phosphorylase
PRO_0000063183

Experimental info

Mutagenesis51D → A, E or N: No change in activity. Ref.8
Sequence conflict111L → Y AA sequence Ref.7
Sequence conflict151D → Y AA sequence Ref.7

Secondary structure

............................................. 253
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
P12758 [UniParc].

Last modified January 23, 2007. Version 3.
Checksum: 7446DE45BA04D88D

FASTA25327,159
        10         20         30         40         50         60 
MSKSDVFHLG LTKNDLQGAT LAIVPGDPDR VEKIAALMDK PVKLASHREF TTWRAELDGK 

        70         80         90        100        110        120 
PVIVCSTGIG GPSTSIAVEE LAQLGIRTFL RIGTTGAIQP HINVGDVLVT TASVRLDGAS 

       130        140        150        160        170        180 
LHFAPLEFPA VADFECTTAL VEAAKSIGAT THVGVTASSD TFYPGQERYD TYSGRVVRHF 

       190        200        210        220        230        240 
KGSMEEWQAM GVMNYEMESA TLLTMCASQG LRAGMVAGVI VNRTQQEIPN AETMKQTESH 

       250 
AVKIVVEAAR RLL 

« Hide

References

« Hide 'large scale' references
[1]"Nucleotide sequence of the Escherichia coli uridine phosphorylase (udp) gene."
Walton L., Richards C.A., Elwell L.P.
Nucleic Acids Res. 17:6741-6741(1989) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
Strain: K12.
[2]"Analysis of the Escherichia coli genome: DNA sequence of the region from 84.5 to 86.5 minutes."
Daniels D.L., Plunkett G. III, Burland V.D., Blattner F.R.
Science 257:771-778(1992) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: K12 / MG1655 / ATCC 47076.
[3]"The complete genome sequence of Escherichia coli K-12."
Blattner F.R., Plunkett G. III, Bloch C.A., Perna N.T., Burland V., Riley M., Collado-Vides J., Glasner J.D., Rode C.K., Mayhew G.F., Gregor J., Davis N.W., Kirkpatrick H.A., Goeden M.A., Rose D.J., Mau B., Shao Y.
Science 277:1453-1462(1997) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: K12 / MG1655 / ATCC 47076.
[4]"Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110."
Hayashi K., Morooka N., Yamamoto Y., Fujita K., Isono K., Choi S., Ohtsubo E., Baba T., Wanner B.L., Mori H., Horiuchi T.
Mol. Syst. Biol. 2:E1-E5(2006) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
[5]"Identifying proteins from two-dimensional gels by molecular mass searching of peptide fragments in protein sequence databases."
Henzel W.J., Billeci T.M., Stults J.T., Wong S.C., Grimley C., Watanabe C.
Proc. Natl. Acad. Sci. U.S.A. 90:5011-5015(1993) [PubMed] [Europe PMC] [Abstract]
Cited for: PROTEIN SEQUENCE OF 2-18.
[6]Frutiger S., Hughes G.J., Pasquali C., Hochstrasser D.F.
Submitted (FEB-1996) to UniProtKB
Cited for: PROTEIN SEQUENCE OF 2-12.
Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
[7]"FIS is a regulator of metabolism in Escherichia coli."
Gonzalez-Gil G., Bringmann P., Kahmann R.
Mol. Microbiol. 22:21-29(1996) [PubMed] [Europe PMC] [Abstract]
Cited for: PROTEIN SEQUENCE OF 2-16.
Strain: K12.
[8]"Protein engineering of uridine phosphorylase from Escherichia coli K-12. I. Cloning and expression of uridine phosphorylase genes from Klebsiella aerogenes and Salmonella typhimurium in E. coli."
Veiko V.P., Chebotaev D.V., Ovcharova I.V., Gul'Ko L.B.
Bioorg. Khim. 24:381-387(1998) [PubMed] [Europe PMC] [Abstract]
Cited for: MUTAGENESIS OF ASP-5.
[9]"Atomic structure at 2.5-A resolution of uridine phosphorylase from E. coli as refined in the monoclinic crystal lattice."
Morgunova E.Y., Mikhailov A.M., Popov A.N., Blagova E.V., Smirnova E.A., Vainshtein B.K., Mao C., Armstrong S.H.R., Ealick S.E., Komissarov A.A., Linkova E.V., Burlakova A.A., Mironov A.S., Debabov V.G.
FEBS Lett. 367:183-187(1995) [PubMed] [Europe PMC] [Abstract]
Cited for: X-RAY CRYSTALLOGRAPHY (2.5 ANGSTROMS).
[10]"Structure of Escherichia coli uridine phosphorylase at 2.0 A."
Burling F.T., Kniewel R., Buglino J.A., Chadha T., Beckwith A., Lima C.D.
Acta Crystallogr. D 59:73-76(2003) [PubMed] [Europe PMC] [Abstract]
Cited for: X-RAY CRYSTALLOGRAPHY (2.0 ANGSTROMS).
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
X15689 Genomic DNA. Translation: CAA33724.1.
M87049 Genomic DNA. Translation: AAA67626.1.
U00096 Genomic DNA. Translation: AAC76834.1.
AP009048 Genomic DNA. Translation: BAE77470.1.
PIRS05491.
RefSeqNP_418275.1. NC_000913.3.
YP_491611.1. NC_007779.1.

3D structure databases

PDBe
RCSB-PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
1K3FX-ray2.50A/B/C/D/E/F1-253[»]
1LX7X-ray2.00A/B1-253[»]
1RXCX-ray2.35A/B/C/D/E/F/G/H/I/J/K/L1-253[»]
1RXSX-ray2.80A/B/C/D/E/F/G/H/I/J/K/L/M/N/O/P/Q/R/a/b/c/d/e/h/i/j/k/l/m/o1-253[»]
1RXUX-ray3.10A/B/C/D/E/F/G/H/I/J/K/L/M/N/O/P/Q/R1-253[»]
1RXYX-ray1.70A/B1-253[»]
1T0UX-ray2.20A/B1-253[»]
1TGVX-ray2.20A/B1-253[»]
1TGYX-ray2.20A/B1-253[»]
1U1CX-ray2.20A/B/C/D/E/F2-253[»]
1U1DX-ray2.00A/B/C/D/E/F2-253[»]
1U1EX-ray2.00A/B/C/D/E/F2-253[»]
1U1FX-ray2.30A/B/C/D/E/F2-253[»]
1U1GX-ray1.95A/B/C/D/E/F2-253[»]
3KVVX-ray1.80A/B/C/D/E/F1-253[»]
ProteinModelPortalP12758.
SMRP12758. Positions 4-253.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

DIPDIP-11075N.
IntActP12758. 4 interactions.
MINTMINT-6478293.
STRING511145.b3831.

Chemistry

DrugBankDB00544. Fluorouracil.

2D gel databases

SWISS-2DPAGEP12758.

Proteomic databases

PaxDbP12758.
PRIDEP12758.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaAAC76834; AAC76834; b3831.
BAE77470; BAE77470; BAE77470.
GeneID12934305.
948987.
KEGGecj:Y75_p3347.
eco:b3831.
PATRIC32123163. VBIEscCol129921_3947.

Organism-specific databases

EchoBASEEB1038.
EcoGeneEG11045. udp.

Phylogenomic databases

eggNOGCOG2820.
HOGENOMHOG000274897.
KOK00757.
OMANVMNFEM.
OrthoDBEOG676Z3T.
PhylomeDBP12758.

Enzyme and pathway databases

BioCycEcoCyc:URPHOS-MONOMER.
ECOL316407:JW3808-MONOMER.
MetaCyc:URPHOS-MONOMER.
UniPathwayUPA00574; UER00633.

Gene expression databases

GenevestigatorP12758.

Family and domain databases

Gene3D3.40.50.1580. 1 hit.
InterProIPR018017. Nucleoside_phosphorylase.
IPR018016. Nucleoside_phosphorylase_CS.
IPR000845. Nucleoside_phosphorylase_d.
IPR010058. Uridine_phosphorylase.
[Graphical view]
PANTHERPTHR21234. PTHR21234. 1 hit.
PfamPF01048. PNP_UDP_1. 1 hit.
[Graphical view]
SUPFAMSSF53167. SSF53167. 1 hit.
TIGRFAMsTIGR01718. Uridine-psphlse. 1 hit.
PROSITEPS01232. PNP_UDP_1. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

EvolutionaryTraceP12758.
PROP12758.

Entry information

Entry nameUDP_ECOLI
AccessionPrimary (citable) accession number: P12758
Secondary accession number(s): Q2M8D6
Entry history
Integrated into UniProtKB/Swiss-Prot: October 1, 1989
Last sequence update: January 23, 2007
Last modified: July 9, 2014
This is version 146 of the entry and version 3 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

PATHWAY comments

Index of metabolic and biosynthesis pathways

Escherichia coli

Escherichia coli (strain K12): entries and cross-references to EcoGene