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Protein

Uridine phosphorylase

Gene

udp

Organism
Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

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 (By similarity).By similarity

Catalytic activityi

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

Pathwayi

GO - Molecular functioni

  1. uridine phosphorylase activity Source: UniProtKB-EC

GO - Biological processi

  1. nucleotide catabolic process Source: InterPro
  2. UMP salvage Source: UniProtKB-UniPathway
Complete GO annotation...

Keywords - Molecular functioni

Glycosyltransferase, Transferase

Enzyme and pathway databases

BioCyciSENT99287:GCTI-3997-MONOMER.
UniPathwayiUPA00574; UER00633.

Names & Taxonomyi

Protein namesi
Recommended name:
Uridine phosphorylase (EC:2.4.2.3)
Short name:
UPase
Short name:
UrdPase
Gene namesi
Name:udp
Ordered Locus Names:STM3968
ORF Names:STMD1.21
OrganismiSalmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)
Taxonomic identifieri99287 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeSalmonella
ProteomesiUP000001014: Chromosome

Subcellular locationi

Cytoplasm By similarity

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methioninei1 – 11RemovedBy similarity
Chaini2 – 253252Uridine phosphorylasePRO_0000063185Add
BLAST

Proteomic databases

PaxDbiP0A1F6.
PRIDEiP0A1F6.

Interactioni

Subunit structurei

Homohexamer.By similarity

Protein-protein interaction databases

STRINGi99287.STM3968.

Structurei

Secondary structure

1
253
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Turni7 – 93Combined sources
Helixi13 – 164Combined sources
Beta strandi21 – 266Combined sources
Helixi28 – 303Combined sources
Helixi31 – 355Combined sources
Beta strandi38 – 4710Combined sources
Beta strandi50 – 578Combined sources
Beta strandi60 – 656Combined sources
Helixi71 – 8313Combined sources
Beta strandi88 – 958Combined sources
Beta strandi107 – 11812Combined sources
Helixi119 – 1224Combined sources
Beta strandi126 – 1283Combined sources
Helixi134 – 14613Combined sources
Beta strandi151 – 16010Combined sources
Helixi164 – 1663Combined sources
Beta strandi171 – 1733Combined sources
Helixi178 – 1803Combined sources
Helixi183 – 1897Combined sources
Beta strandi194 – 1985Combined sources
Helixi199 – 2079Combined sources
Turni208 – 2103Combined sources
Beta strandi212 – 2198Combined sources
Turni223 – 2253Combined sources
Turni231 – 2333Combined sources
Turni235 – 2395Combined sources
Helixi240 – 25213Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1RYZX-ray2.90A/B/C/D/E/F1-253[»]
1SJ9X-ray2.50A/B/C/D/E/F1-253[»]
1Y1QX-ray2.35A/B/C/D/E/F1-253[»]
1Y1RX-ray2.11A/B/C/D/E/F1-253[»]
1Y1SX-ray2.55A/B/C/D/E/F1-253[»]
1Y1TX-ray1.77A/F1-253[»]
1ZL2X-ray1.85A/B/C/D/E/F1-253[»]
2HN9X-ray2.12A/B/C/D/E/F1-253[»]
2HRDX-ray1.70A/B/C/D/E/F1-253[»]
2HSWX-ray1.99A/B1-253[»]
2HWUX-ray2.91A/B/C/D/E/F1-253[»]
2I8AX-ray1.64A/B/C/D/E/F2-253[»]
2IQ5X-ray1.90A/B2-253[»]
2OECX-ray2.19A/B/C/D/E/F2-253[»]
2OXFX-ray1.76A/F4-253[»]
2PGAX-ray1.74A/B/C/D/E/F1-253[»]
2QDKX-ray1.62A/B/C/D/E/F2-253[»]
2RJ3X-ray2.51A/B/C/D/E/F2-253[»]
3C74X-ray2.38A/B/C/D/E/F2-253[»]
3DDOX-ray1.50A/B/C/D/E/F1-253[»]
3DPSX-ray1.80A/F1-253[»]
3FWPX-ray1.86A/B/C/D/E/F1-253[»]
4E1VX-ray2.15A/B/C/D/E/F/G/H/I1-253[»]
ProteinModelPortaliP0A1F6.
SMRiP0A1F6. Positions 1-253.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP0A1F6.

Family & Domainsi

Sequence similaritiesi

Belongs to the PNP/UDP phosphorylase family.Curated

Phylogenomic databases

eggNOGiCOG2820.
HOGENOMiHOG000274897.
KOiK00757.
OMAiNVMNFEM.
OrthoDBiEOG676Z3T.
PhylomeDBiP0A1F6.

Family and domain databases

Gene3Di3.40.50.1580. 1 hit.
InterProiIPR018017. Nucleoside_phosphorylase.
IPR018016. Nucleoside_phosphorylase_CS.
IPR000845. Nucleoside_phosphorylase_d.
IPR010058. Uridine_phosphorylase.
[Graphical view]
PANTHERiPTHR21234. PTHR21234. 1 hit.
PfamiPF01048. PNP_UDP_1. 1 hit.
[Graphical view]
SUPFAMiSSF53167. SSF53167. 1 hit.
TIGRFAMsiTIGR01718. Uridine-psphlse. 1 hit.
PROSITEiPS01232. PNP_UDP_1. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P0A1F6-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSKSDVFHLG LTKNDLQGAQ LAIVPGDPER VEKIAALMDK PVKLASHREF
60 70 80 90 100
TSWRAELDGK AVIVCSTGIG GPSTSIAVEE LAQLGIRTFL RIGTTGAIQP
110 120 130 140 150
HINVGDVLVT TASVRLDGAS LHFAPMEFPA VADFACTTAL VEAAKSIGAT
160 170 180 190 200
THVGVTASSD TFYPGQERYD TYSGRVVRRF KGSMEEWQAM GVMNYEMESA
210 220 230 240 250
TLLTMCASQG LRAGMVAGVI VNRTQQEIPN AETMKQTESH AVKIVVEAAR

RLL
Length:253
Mass (Da):27,139
Last modified:January 23, 2007 - v2
Checksum:i63F26AFB8427BED2
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti200 – 2001A → R in CAA73795 (PubMed:9661793).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Y14282 Genomic DNA. Translation: CAA74658.2.
Y13360 Genomic DNA. Translation: CAA73795.1.
AF233324 Genomic DNA. Translation: AAF33424.1.
AE006468 Genomic DNA. Translation: AAL22812.1.
RefSeqiNP_462853.1. NC_003197.1.

Genome annotation databases

EnsemblBacteriaiAAL22812; AAL22812; STM3968.
GeneIDi1255494.
KEGGistm:STM3968.
PATRICi32386803. VBISalEnt20916_4187.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Y14282 Genomic DNA. Translation: CAA74658.2.
Y13360 Genomic DNA. Translation: CAA73795.1.
AF233324 Genomic DNA. Translation: AAF33424.1.
AE006468 Genomic DNA. Translation: AAL22812.1.
RefSeqiNP_462853.1. NC_003197.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1RYZX-ray2.90A/B/C/D/E/F1-253[»]
1SJ9X-ray2.50A/B/C/D/E/F1-253[»]
1Y1QX-ray2.35A/B/C/D/E/F1-253[»]
1Y1RX-ray2.11A/B/C/D/E/F1-253[»]
1Y1SX-ray2.55A/B/C/D/E/F1-253[»]
1Y1TX-ray1.77A/F1-253[»]
1ZL2X-ray1.85A/B/C/D/E/F1-253[»]
2HN9X-ray2.12A/B/C/D/E/F1-253[»]
2HRDX-ray1.70A/B/C/D/E/F1-253[»]
2HSWX-ray1.99A/B1-253[»]
2HWUX-ray2.91A/B/C/D/E/F1-253[»]
2I8AX-ray1.64A/B/C/D/E/F2-253[»]
2IQ5X-ray1.90A/B2-253[»]
2OECX-ray2.19A/B/C/D/E/F2-253[»]
2OXFX-ray1.76A/F4-253[»]
2PGAX-ray1.74A/B/C/D/E/F1-253[»]
2QDKX-ray1.62A/B/C/D/E/F2-253[»]
2RJ3X-ray2.51A/B/C/D/E/F2-253[»]
3C74X-ray2.38A/B/C/D/E/F2-253[»]
3DDOX-ray1.50A/B/C/D/E/F1-253[»]
3DPSX-ray1.80A/F1-253[»]
3FWPX-ray1.86A/B/C/D/E/F1-253[»]
4E1VX-ray2.15A/B/C/D/E/F/G/H/I1-253[»]
ProteinModelPortaliP0A1F6.
SMRiP0A1F6. Positions 1-253.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi99287.STM3968.

Proteomic databases

PaxDbiP0A1F6.
PRIDEiP0A1F6.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAL22812; AAL22812; STM3968.
GeneIDi1255494.
KEGGistm:STM3968.
PATRICi32386803. VBISalEnt20916_4187.

Phylogenomic databases

eggNOGiCOG2820.
HOGENOMiHOG000274897.
KOiK00757.
OMAiNVMNFEM.
OrthoDBiEOG676Z3T.
PhylomeDBiP0A1F6.

Enzyme and pathway databases

UniPathwayiUPA00574; UER00633.
BioCyciSENT99287:GCTI-3997-MONOMER.

Miscellaneous databases

EvolutionaryTraceiP0A1F6.

Family and domain databases

Gene3Di3.40.50.1580. 1 hit.
InterProiIPR018017. Nucleoside_phosphorylase.
IPR018016. Nucleoside_phosphorylase_CS.
IPR000845. Nucleoside_phosphorylase_d.
IPR010058. Uridine_phosphorylase.
[Graphical view]
PANTHERiPTHR21234. PTHR21234. 1 hit.
PfamiPF01048. PNP_UDP_1. 1 hit.
[Graphical view]
SUPFAMiSSF53167. SSF53167. 1 hit.
TIGRFAMsiTIGR01718. Uridine-psphlse. 1 hit.
PROSITEiPS01232. PNP_UDP_1. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Structure and expression of the gene encoding uridine phosphorylase (udp) in Salmonella typhimurium."
    Errais L.L., Ukhabotina L.S., Eremina S.Y., Evdokimova A.A., Mironov A.S.
    Submitted (JUN-2000) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: LT2.
  2. "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: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: LT2.
  3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: LT2 / SGSC1412 / ATCC 700720.

Entry informationi

Entry nameiUDP_SALTY
AccessioniPrimary (citable) accession number: P0A1F6
Secondary accession number(s): O08432, O33808, Q9L6M8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 1, 2005
Last sequence update: January 23, 2007
Last modified: January 7, 2015
This is version 77 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

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.