3i5l: Difference between revisions

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== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[3i5l]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3I5L OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3I5L FirstGlance]. <br>
<table><tr><td colspan='2'>[[3i5l]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3I5L OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3I5L FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1P1:(22R,51R)-22,51-DIAMINO-5,11,17,28,34,40,46,57-OCTAMETHYL-2,5,8,11,14,17,20,25,28,31,34,37,40,43,46,49,54,57,60,61,64,65-DOCOSAAZANONACYCLO[54.2.1.1~4,7~.1~10,13~.1~16,19~.1~27,30~.1~33,36~.1~39,42~.1~45,48~]HEXAHEXACONTA-1(58),4(66),6,10(65),12,16(64),18,27(63),29,33(62),35,39(61),41,45(60),47,56(59)-HEXADECAENE-3,9,15,21,26,32,38,44,50,55-DECONE'>1P1</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.18&#8491;</td></tr>
<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=C38:5-IODO-2-DEOXY-CYTIDINE-5-MONOPHOSPHATE'>C38</scene></td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1P1:(22R,51R)-22,51-DIAMINO-5,11,17,28,34,40,46,57-OCTAMETHYL-2,5,8,11,14,17,20,25,28,31,34,37,40,43,46,49,54,57,60,61,64,65-DOCOSAAZANONACYCLO[54.2.1.1~4,7~.1~10,13~.1~16,19~.1~27,30~.1~33,36~.1~39,42~.1~45,48~]HEXAHEXACONTA-1(58),4(66),6,10(65),12,16(64),18,27(63),29,33(62),35,39(61),41,45(60),47,56(59)-HEXADECAENE-3,9,15,21,26,32,38,44,50,55-DECONE'>1P1</scene>, <scene name='pdbligand=C38:5-IODO-2-DEOXY-CYTIDINE-5-MONOPHOSPHATE'>C38</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3i5e|3i5e]]</div></td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3i5l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3i5l OCA], [https://pdbe.org/3i5l PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3i5l RCSB], [https://www.ebi.ac.uk/pdbsum/3i5l PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3i5l ProSAT]</span></td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3i5l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3i5l OCA], [https://pdbe.org/3i5l PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3i5l RCSB], [https://www.ebi.ac.uk/pdbsum/3i5l PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3i5l ProSAT]</span></td></tr>
</table>
</table>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Many human diseases are caused by dysregulated gene expression. The oversupply of transcription factors may be required for the growth and metastatic behavior of human cancers. Cell permeable small molecules that can be programmed to disrupt transcription factor-DNA interfaces could silence aberrant gene expression pathways. Pyrrole-imidazole polyamides are DNA minor-groove binding molecules that are programmable for a large repertoire of DNA motifs. A high resolution X-ray crystal structure of an 8-ring cyclic Py/Im polyamide bound to the central 6 bp of the sequence d(5'-CCAGGCCTGG-3')2 reveals a 4 A widening of the minor groove and compression of the major groove along with a &gt;18 degrees bend in the helix axis toward the major groove. This allosteric perturbation of the DNA helix provides a molecular basis for disruption of transcription factor-DNA interfaces by small molecules, a minimum step in chemical control of gene networks.
Allosteric modulation of DNA by small molecules.,Chenoweth DM, Dervan PB Proc Natl Acad Sci U S A. 2009 Jul 30. PMID:19666554<ref>PMID:19666554</ref>
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 3i5l" style="background-color:#fffaf0;"></div>
== References ==
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Large Structures]]
[[Category: Large Structures]]
[[Category: Chenoweth, D M]]
[[Category: Chenoweth DM]]
[[Category: Dervan, P B]]
[[Category: Dervan PB]]
[[Category: Cyclic polyamide]]
[[Category: Dna]]
[[Category: Dna binder]]
[[Category: Minor groove binder]]
[[Category: Pyim polyamide]]
Retrieved from "https://proteopedia.org/3i5l"