154d: Difference between revisions

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New page: left|200px<br /><applet load="154d" size="450" color="white" frame="true" align="right" spinBox="true" caption="154d, resolution 2.500Å" /> '''DNA DISTORTION IN B...
 
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[[Image:154d.jpg|left|200px]]<br /><applet load="154d" size="450" color="white" frame="true" align="right" spinBox="true"
caption="154d, resolution 2.500&Aring;" />
'''DNA DISTORTION IN BIS-INTERCALATED COMPLEXES'''<br />


==Overview==
==DNA DISTORTION IN BIS-INTERCALATED COMPLEXES==
The bis-intercalators Flexi-Di and ditercalinium are synthetic dimers that, bis-intercalate into DNA and cause cell death in prokaryotes from futile, and abortive repair of DNA. Each is composed of two 7H-pyridocarbazole, units and a linker. Flexi-Di has a flexible spermine-like linker while, ditercalinium has a rigid bis(ethylpiperidinium) linker. This report, describing the 2.5-A X-ray structure of Flexi-Di complexed with, [d(BrCGCG)]2, appears to be the first report of a three-dimensional, structure of a DNA complex with a bis-intercalator with a flexible linker., DNA complex formation with a ditercalinium analog having a flexible linker, was not anticipated to yield unstacked and bent DNA as was observed in the, previously reported ditercalinium.[d(CGCG)]2 complex. Surprisingly, the, DNA in the Flexi-Di complex is bent to a degree exceeding that of the, ditercalinium complex. A comparison of the DNA complexes of Flexi-Di and, ditercalinium has allowed us to propose a mechanism by which these, bis-intercalators distort DNA. We propose that this class of, bis-intercalators pulls the internal base pairs into the major groove and, pushes the external base pairs into the minor groove. The result is a bend, toward the minor groove. It appears that hydrogen bonds between the linker, and the internal guanines effectively pull the central base pairs of the, complex out into the major groove. At the external regions of the complex, stacking interactions between the chromophores and terminal base pairs, effectively push the terminal base pairs into the minor groove. The result, of this push/pull combination is to bend the DNA.
<StructureSection load='154d' size='340' side='right'caption='[[154d]], [[Resolution|resolution]] 2.50&Aring;' scene=''>
 
== Structural highlights ==
==About this Structure==
<table><tr><td colspan='2'>[[154d]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=154D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=154D FirstGlance]. <br>
154D is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with FLD as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=154D OCA].
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.5&#8491;</td></tr>
 
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CBR:5-BROMO-2-DEOXY-CYTIDINE-5-MONOPHOSPHATE'>CBR</scene>, <scene name='pdbligand=FLD:BIS-(N-ETHYLPYRIDINIUM-(3-METHOXYCARBAZOLE))HEXANE-1,6-DIAMINE'>FLD</scene></td></tr>
==Reference==
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=154d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=154d OCA], [https://pdbe.org/154d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=154d RCSB], [https://www.ebi.ac.uk/pdbsum/154d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=154d ProSAT]</span></td></tr>
DNA distortion in bis-intercalated complexes., Peek ME, Lipscomb LA, Bertrand JA, Gao Q, Roques BP, Garbay-Jaureguiberry C, Williams LD, Biochemistry. 1994 Apr 5;33(13):3794-800. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=8142381 8142381]
</table>
[[Category: Protein complex]]
__TOC__
[[Category: Bertrand, J.A.]]
</StructureSection>
[[Category: Gao, Q.]]
[[Category: Large Structures]]
[[Category: Garbay-Jaureguiberry, C.]]
[[Category: Bertrand JA]]
[[Category: Lipscomb, L.A.]]
[[Category: Gao Q]]
[[Category: Peek, M.E.]]
[[Category: Garbay-Jaureguiberry C]]
[[Category: Roques, B.P.]]
[[Category: Lipscomb LA]]
[[Category: Williams, L.D.]]
[[Category: Peek ME]]
[[Category: FLD]]
[[Category: Roques BP]]
[[Category: complexed with drug]]
[[Category: Williams LD]]
[[Category: double helix]]
[[Category: modified]]
[[Category: right handed dna]]
 
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Sat Nov 24 21:59:06 2007''

Latest revision as of 09:25, 7 February 2024

DNA DISTORTION IN BIS-INTERCALATED COMPLEXESDNA DISTORTION IN BIS-INTERCALATED COMPLEXES

Structural highlights

154d is a 2 chain structure. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 2.5Å
Ligands:,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

154d, resolution 2.50Å

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