1ndp: Difference between revisions

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[[Image:1ndp.jpg|left|200px]]
{{Seed}}
[[Image:1ndp.png|left|200px]]


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{{STRUCTURE_1ndp|  PDB=1ndp  |  SCENE=  }}  
{{STRUCTURE_1ndp|  PDB=1ndp  |  SCENE=  }}  


'''ADENOSINE 5'-DIPHOSPHATE BINDING AND THE ACTIVE SITE OF NUCLEOSIDE DIPHOSPHATE KINASE'''
===ADENOSINE 5'-DIPHOSPHATE BINDING AND THE ACTIVE SITE OF NUCLEOSIDE DIPHOSPHATE KINASE===




==Overview==
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The X-ray structure of nucleoside diphosphate kinase (NDP kinase) from the slime mold Dictyostelium discoideum has been determined to 2.2-A resolution and refined to an R-factor of 0.19 with and without bound ADP-Mg2+. The nucleotide binds near His 122, a residue which becomes phosphorylated during the catalytic cycle. The mode of binding is different from that observed in other phosphokinases, and it involves no glycine-rich sequence. The adenine base makes only nonpolar contacts with the protein. It points outside, explaining the lack of specificity of NDP kinase toward the base. The ribose 2'- and 3'-hydroxyls and the pyrophosphate moiety are H-bonded to polar side chains. A Mg2+ ion bridges the alpha- to the beta-phosphate which approaches the imidazole group of His 122 from the N delta side. The geometry at the active site in the ADP-Mg2+ complex suggests a mechanism for catalysis whereby the gamma-phosphate of a nucleoside triphosphate can be transferred onto His 122 with a minimum of atomic motion.
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{{ABSTRACT_PUBMED_8286376}}


==About this Structure==
==About this Structure==
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[[Category: Veron, M.]]
[[Category: Veron, M.]]
[[Category: Phosphotransferase]]
[[Category: Phosphotransferase]]
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May  3 02:24:43 2008''
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Jul 27 18:03:51 2008''

Revision as of 15:03, 27 July 2008

File:1ndp.png

Template:STRUCTURE 1ndp

ADENOSINE 5'-DIPHOSPHATE BINDING AND THE ACTIVE SITE OF NUCLEOSIDE DIPHOSPHATE KINASE

Template:ABSTRACT PUBMED 8286376

About this Structure

1NDP is a Single protein structure of sequence from Dictyostelium discoideum. Full crystallographic information is available from OCA.

Reference

Adenosine 5'-diphosphate binding and the active site of nucleoside diphosphate kinase., Morera S, Lascu I, Dumas C, LeBras G, Briozzo P, Veron M, Janin J, Biochemistry. 1994 Jan 18;33(2):459-67. PMID:8286376

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