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261d

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{{STRUCTURE_261d| PDB=261d | SCENE= }}
{{STRUCTURE_261d| PDB=261d | SCENE= }}
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'''CRYSTAL STRUCTURE OF THE DNA DECAMER D(CGCAATTGCG) COMPLEXED WITH THE MINOR GROOVE BINDING DRUG NETROPSIN'''
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===CRYSTAL STRUCTURE OF THE DNA DECAMER D(CGCAATTGCG) COMPLEXED WITH THE MINOR GROOVE BINDING DRUG NETROPSIN===
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==Overview==
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The crystal structure of netropsin bound to the decamer d(CGCAATTGCG) has been determined at 2.4 A resolution. This is the first example of a crystal structure of netropsin bound to decamer DNA. The central eight bases of each DNA single-strand base pair with a self-complementary strand to form an octamer B-DNA duplex. These duplexes lie end to end within the unit cell. The terminal 5'-C and G-3' bases are unpaired and interact with the neighboring duplexes via interactions within both the major and minor groove to form base triplet interactions of the type C(+)-G x C and G*(G x C), respectively. The triplet interaction of the type C(+)-G x C is known to exist within triplex DNA with the C+ base oriented parallel with the Watson-Crick guanine base to which it hydrogen bonds. The netropsin molecule lies within the minor groove of the octamer duplex and assumes a class I type position, with bifurcated hydrogen-bonding interactions from the amide groups of the netropsin to the A x T base pairs of the minor groove. The netropsin molecule fits within a five base pair long minor groove site by bending of the flexible amidinium group at one end of the drug.
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(as it appears on PubMed at http://www.pubmed.gov), where 9125500 is the PubMed ID number.
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{{ABSTRACT_PUBMED_9125500}}
==About this Structure==
==About this Structure==
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[[Category: Flipped-out base]]
[[Category: Flipped-out base]]
[[Category: Intermolecular base triplet]]
[[Category: Intermolecular base triplet]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May 3 18:24:19 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jul 28 16:46:34 2008''

Revision as of 13:46, 28 July 2008

Image:261d.png

Template:STRUCTURE 261d

CRYSTAL STRUCTURE OF THE DNA DECAMER D(CGCAATTGCG) COMPLEXED WITH THE MINOR GROOVE BINDING DRUG NETROPSIN

Template:ABSTRACT PUBMED 9125500

About this Structure

Full crystallographic information is available from OCA.

Reference

Crystal structure of the DNA decamer d(CGCAATTGCG) complexed with the minor groove binding drug netropsin., Nunn CM, Garman E, Neidle S, Biochemistry. 1997 Apr 22;36(16):4792-9. PMID:9125500

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