EzCatDB: T00037

DB codeT00037
CATH domainDomain 13.90.1170.30
Domain 23.40.1030.10Catalytic domain
Domain 31.20.970.10
E.C.2.4.2.2
CSA1brw
MACiEM0091

CATH domainRelated DB codes (homologues)
1.20.970.10T00038
3.40.1030.10T00038
3.90.1170.30T00038

Enzyme Name
Swiss-protKEGG

P77836
Protein namePyrimidine-nucleoside phosphorylasepyrimidine-nucleoside phosphorylase
Py-NPase
SynonymsPYNP
EC 2.4.2.2

KEGG pathways
MAP codePathways
MAP00240Pyrimidine metabolism

Swiss-prot:Accession NumberP77836
Entry namePDP_BACST
ActivityA pyrimidine nucleoside + phosphate = a pyrimidine base + alpha-D-ribose 1-phosphate.
SubunitHomodimer.
Subcellular location
CofactorBinds 1 potassium ion per subunit.


CofactorsSubstratesProducts
KEGG-idC00238C03169C00009C00396C00620
CompoundPotassiumPyrimidine nucleosideOrthophosphatePyrimidinealpha-D-Ribose 1-phosphate
Typeunivalent metal (Na+, K+)nucleosidephosphate group/phosphate ionaromatic ring (with nitrogen atoms)carbohydrate,phosphate group/phosphate ion
1brwA01UnboundUnboundUnboundUnboundUnbound
1brwB01UnboundUnboundUnboundUnboundUnbound
1brwA02Analogue:_CAUnboundBound:PO4UnboundUnbound
1brwB02Analogue:_CAUnboundBound:PO4Analogue:URAUnbound
1brwA03UnboundUnboundUnboundUnboundUnbound
1brwB03UnboundUnboundUnboundUnboundUnbound

Active-site residues
resource
Swiss-prot & literature [2]
pdbCatalytic residuesCofactor-binding residues
1brwA01

1brwB01

1brwA02HIS   82;ARG  168;SER  183;LYS  187
GLY   88;THR   90;LEU  243;ALA  246;GLU  255(Na+ binding)
1brwB02HIS 1082;ARG 1168;SER 1183;LYS 1187
GLY 1088;THR 1090;LEU 1243;ALA 1246;GLU 1255(Na+ binding)
1brwA03

1brwB03


References for Catalytic Mechanism
ReferencesSectionsNo. of steps in catalysis
[2]p.1474, Fig.72
[4]Fig.13

references
[1]
PubMed ID6216943
JournalCan J Biochem
Year1982
Volume60
Pages917-21
AuthorsShriver JW, Sykes BD
TitleIn situ enzymatic removal of orthophosphate by the nucleoside phosphorylase catalyzed phosphorolysis of nicotinamide riboside.
[2]
CommentsX-RAY CRYSTALLOGRAPHY (2.1 ANGSTROMS)
Medline ID99036865
PubMed ID9817849
JournalStructure
Year1998
Volume6
Pages1467-79
AuthorsPugmire MJ, Ealick SE
TitleThe crystal structure of pyrimidine nucleoside phosphorylase in a closed conformation.
Related PDB1brw
Related Swiss-protP77836
[3]
PubMed ID10089427
JournalActa Crystallogr D Biol Crystallogr
Year1999
Volume55
Pages287-90
AuthorsZhou M, Pugmire MJ, Vuong BQ, Ealick SE
TitleCloning, expression and crystallization of pyrimidine nucleoside phosphorylase from Bacillus stearothermophilus.
[4]
PubMed ID11743878
JournalBiochem J
Year2002
Volume361
Pages1-25
AuthorsPugmire MJ, Ealick SE
TitleStructural analyses reveal two distinct families of nucleoside phosphorylases.
[5]
PubMed ID12093726
JournalEMBO J
Year2002
Volume21
Pages3245-54
AuthorsMayans O, Ivens A, Nissen LJ, Kirschner K, Wilmanns M
TitleStructural analysis of two enzymes catalysing reverse metabolic reactions implies common ancestry.
[6]
PubMed ID12123839
JournalFEBS Lett
Year2002
Volume523
Pages239-46
AuthorsKim C, Xuong NH, Edwards S, Madhusudan, Yee MC, Spraggon G, Mills SE
TitleThe crystal structure of anthranilate phosphoribosyltransferase from the enterobacterium Pectobacterium carotovorum.


createdupdated
2004-03-232009-02-26


Copyright: Nozomi Nagano, JST & CBRC-AIST
Funded by PRESTO/Japan Science and Technology Corporation (JST) (December 2001 - November 2004)
Funded by Grant-in-Aid for Publication of Scientific Research Results/Japan Society for the Promotion of Science (JSPS) (April 2005 - March 2006)
Funded by Grant-in-Aid for Scientific Research (B)/Japan Society for the Promotion of Science (JSPS) (April 2005 - March 2008)
Funded by BIRD/Japan Science and Technology Corporation (JST) (September 2005 - September 2010)
Funded by BIRD/Japan Science and Technology Corporation (JST) (October 2007 - September 2010)
Funded by Grant-in-Aid for Publication of Scientific Research Results/Japan Society for the Promotion of Science (JSPS) (April 2011 - March 2012)

© Computational Biology Research Center, AIST, 2004 All Rights Reserved.