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P77836 (PDP_GEOSE) Reviewed, UniProtKB/Swiss-Prot

Last modified July 9, 2014. Version 95. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | 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:
Pyrimidine-nucleoside phosphorylase

Short name=PYNP
EC=2.4.2.2
Gene names
Name:pdp
Synonyms:pyn
OrganismGeobacillus stearothermophilus (Bacillus stearothermophilus)
Taxonomic identifier1422 [NCBI]
Taxonomic lineageBacteriaFirmicutesBacilliBacillalesBacillaceaeGeobacillus

Protein attributes

Sequence length433 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Catalytic activity

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

Thymidine + phosphate = thymine + 2'-deoxy-alpha-D-ribose 1-phosphate.

2'-deoxyuridine + phosphate = uracil + 2'-deoxy-alpha-D-ribose 1-phosphate.

Cofactor

Binds 1 potassium ion per subunit.

Subunit structure

Homodimer.

Sequence similarities

Belongs to the thymidine/pyrimidine-nucleoside phosphorylase family.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 433433Pyrimidine-nucleoside phosphorylase
PRO_0000059083

Sites

Metal binding881Potassium; via carbonyl oxygen
Metal binding901Potassium
Metal binding2431Potassium; via carbonyl oxygen
Metal binding2461Potassium; via carbonyl oxygen
Metal binding2551Potassium

Secondary structure

............................................................. 433
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
P77836 [UniParc].

Last modified February 1, 1997. Version 1.
Checksum: 75EF04B8E7B2E0AD

FASTA43346,332
        10         20         30         40         50         60 
MRMVDLIEKK RDGHALTKEE IQFIIEGYTK GDIPDYQMSA LAMAIFFRGM NEEETAELTM 

        70         80         90        100        110        120 
AMVHSGDTID LSRIEGIKVD KHSTGGVGDT TTLVLGPLVA SVGVPVAKMS GRGLGHTGGT 

       130        140        150        160        170        180 
IDKLESVPGF HVEITNDEFI DLVNKNKIAV VGQSGNLTPA DKKLYALRDV TATVNSIPLI 

       190        200        210        220        230        240 
ASSIMSKKIA AGADAIVLDV KTGVGAFMKD LNDAKALAKA MVDIGNRVGR KTMAIISDMS 

       250        260        270        280        290        300 
QPLGYAIGNA LEVKEAIDTL KGEGPEDFQE LCLVLGSHMV YLAEKASSLE EARHMLEKAM 

       310        320        330        340        350        360 
KDGSALQTFK TFLAAQGGDA SVVDDPSKLP QAKYIIELEA KEDGYVSEIV ADAVGTAAMW 

       370        380        390        400        410        420 
LGAGRATKES TIDLAVGLVL RKKVGDAVKK GESLVTIYSN REQVDDVKQK LYENIRISAT 

       430 
PVQAPTLIYD KIS 

« Hide

References

[1]"Molecular cloning and expression of the pyrimidine nucleoside phosphorylase gene from Bacillus stearothermophilus TH 6-2."
Okuyama K., Hamamoto T., Noguchi T., Midorikawa Y.
Biosci. Biotechnol. Biochem. 60:1655-1659(1996) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
Strain: TH 6-2.
[2]"The crystal structure of pyrimidine nucleoside phosphorylase in a closed conformation."
Pugmire M.J., Ealick S.E.
Structure 6:1467-1479(1998) [PubMed] [Europe PMC] [Abstract]
Cited for: X-RAY CRYSTALLOGRAPHY (2.1 ANGSTROMS).

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
D87961 Genomic DNA. Translation: BAA13512.1.
D87959 Genomic DNA. Translation: BAA20903.1.
PIRJT0875.

3D structure databases

PDBe
RCSB-PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
1BRWX-ray2.10A/B1-432[»]
ProteinModelPortalP77836.
SMRP77836. Positions 1-432.
ModBaseSearch...
MobiDBSearch...

Proteomic databases

PRIDEP77836.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Enzyme and pathway databases

BioCycMetaCyc:MONOMER-17881.

Family and domain databases

Gene3D3.40.1030.10. 1 hit.
3.90.1170.30. 1 hit.
InterProIPR000312. Glycosyl_Trfase_fam3.
IPR017459. Glycosyl_Trfase_fam3_N_dom.
IPR013102. PYNP_C.
IPR018090. Pyrmidine_PPas_bac/euk.
IPR000053. Pyrmidine_PPase.
IPR017872. Pyrmidine_PPase_CS.
[Graphical view]
PANTHERPTHR10515. PTHR10515. 1 hit.
PfamPF02885. Glycos_trans_3N. 1 hit.
PF00591. Glycos_transf_3. 1 hit.
PF07831. PYNP_C. 1 hit.
[Graphical view]
PIRSFPIRSF000478. TP_PyNP. 1 hit.
SMARTSM00941. PYNP_C. 1 hit.
[Graphical view]
SUPFAMSSF47648. SSF47648. 1 hit.
SSF52418. SSF52418. 1 hit.
SSF54680. SSF54680. 1 hit.
TIGRFAMsTIGR02644. Y_phosphoryl. 1 hit.
PROSITEPS00647. THYMID_PHOSPHORYLASE. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

EvolutionaryTraceP77836.

Entry information

Entry namePDP_GEOSE
AccessionPrimary (citable) accession number: P77836
Entry history
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: February 1, 1997
Last modified: July 9, 2014
This is version 95 of the entry and version 1 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