1em0: Difference between revisions

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[[Image:1em0.gif|left|200px]]
{{Seed}}
[[Image:1em0.png|left|200px]]


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{{STRUCTURE_1em0|  PDB=1em0  |  SCENE=  }}  
{{STRUCTURE_1em0|  PDB=1em0  |  SCENE=  }}  


'''COMPLEX OF D(CCTAGG) WITH TETRA-[N-METHYL-PYRIDYL] PORPHYRIN'''
===COMPLEX OF D(CCTAGG) WITH TETRA-[N-METHYL-PYRIDYL] PORPHYRIN===




==Overview==
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The crystal structure of a B-type DNA hexanucleotide duplex complexed with the porphyrin molecule nickel-[tetra-N-methyl-pyridyl] porphyrin has been solved by multiwavelength anomalous diffraction phasing and refined to an R factor of 11.5% at a resolution of 0.9 A. The structure has been solved and refined as two crystallographically independent duplexes, stacked end to end. Contrary to expectation, the porphyrin molecule is not intercalated into the duplex but is stacked onto the ends of the two-duplex stack. The porphyrin molecule is highly buckled as a consequence of the nickel coordination, which produces large changes in local DNA structure. A second mode of porphyrin binding is apparent as a consequence of crystal packing, which places the ligand in the minor groove of an adjacent duplex. This structure thus provides, to our knowledge, the first atomic visualization of minor-groove binding for a porphyrin molecule. The geometry of groove binding provides a ready explanation for porphyrin-induced DNA strand cleavage at deoxyribose residues.
The line below this paragraph, {{ABSTRACT_PUBMED_10920199}}, adds the Publication Abstract to the page
(as it appears on PubMed at http://www.pubmed.gov), where 10920199 is the PubMed ID number.
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{{ABSTRACT_PUBMED_10920199}}


==About this Structure==
==About this Structure==
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[[Category: Porphyrin]]
[[Category: Porphyrin]]
[[Category: Ruffling]]
[[Category: Ruffling]]
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May 2 15:15:55 2008''
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 1 00:57:58 2008''

Revision as of 21:58, 30 June 2008

File:1em0.png

Template:STRUCTURE 1em0

COMPLEX OF D(CCTAGG) WITH TETRA-[N-METHYL-PYRIDYL] PORPHYRIN

Template:ABSTRACT PUBMED 10920199

About this Structure

Full crystallographic information is available from OCA.

Reference

A DNA-porphyrin minor-groove complex at atomic resolution: the structural consequences of porphyrin ruffling., Bennett M, Krah A, Wien F, Garman E, McKenna R, Sanderson M, Neidle S, Proc Natl Acad Sci U S A. 2000 Aug 15;97(17):9476-81. PMID:10920199

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