5oe1
From Proteopedia
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==Im polyamide in complex with 5'CGATGTACATCG3'- hairpin polyamides studies== | ==Im polyamide in complex with 5'CGATGTACATCG3'- hairpin polyamides studies== | ||
| - | <StructureSection load='5oe1' size='340' side='right' caption='[[5oe1 | + | <StructureSection load='5oe1' size='340' side='right'caption='[[5oe1]]' scene=''> |
== Structural highlights == | == Structural highlights == | ||
| - | <table><tr><td colspan='2'>[[5oe1]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5OE1 OCA]. For a <b>guided tour on the structure components</b> use [ | + | <table><tr><td colspan='2'>[[5oe1]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5OE1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5OE1 FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=9T8:3-(3-azaniumylpropanoylamino)propyl-dimethyl-azanium'>9T8</scene>, <scene name='pdbligand=9TK:1-methylimidazole-2-carboxylic+acid'>9TK</scene>, <scene name='pdbligand=ABU:GAMMA-AMINO-BUTANOIC+ACID'>ABU</scene>, <scene name='pdbligand=IMT:4-AMINO-(1-METHYLIMIDAZOLE)-2-CARBOXYLIC+ACID'>IMT</scene>, <scene name='pdbligand=PYB:4-AMINO-(1-METHYLPYRROLE)-2-CARBOXYLIC+ACID'>PYB | + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr> |
| - | + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=9T8:3-(3-azaniumylpropanoylamino)propyl-dimethyl-azanium'>9T8</scene>, <scene name='pdbligand=9TK:1-methylimidazole-2-carboxylic+acid'>9TK</scene>, <scene name='pdbligand=ABU:GAMMA-AMINO-BUTANOIC+ACID'>ABU</scene>, <scene name='pdbligand=DCZ:2-DEOXYCYTIDINE'>DCZ</scene>, <scene name='pdbligand=IMT:4-AMINO-(1-METHYLIMIDAZOLE)-2-CARBOXYLIC+ACID'>IMT</scene>, <scene name='pdbligand=PYB:4-AMINO-(1-METHYLPYRROLE)-2-CARBOXYLIC+ACID'>PYB</scene></td></tr> | |
| - | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[ | + | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=5oe1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5oe1 OCA], [https://pdbe.org/5oe1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5oe1 RCSB], [https://www.ebi.ac.uk/pdbsum/5oe1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5oe1 ProSAT]</span></td></tr> |
</table> | </table> | ||
| + | <div style="background-color:#fffaf0;"> | ||
| + | == Publication Abstract from PubMed == | ||
| + | This manuscript reports the molecular basis for double-stranded DNA (dsDNA) binding of hairpin polyamides incorporating a 5-alkyl thiazole (Nt) unit. Hairpin polyamides containing an N-terminal Nt unit induce higher melting stabilisation of target dsDNA sequences relative to an archetypical hairpin polyamide incorporating an N-terminal imidazole (Im) unit. However, modification of the N-terminus from Im to Nt-building blocks results in an increase in dsDNA binding affinity but lower G-selectivity. A general G-selectivity trend is observed for Nt-containing polyamide analogues. G-selectivity increases as the steric bulk in the Nt 5-position increases. Solution-based NMR structural studies reveal differences in the modulation of the target DNA duplex of Nt-containing hairpin polyamides relative to the Im-containing archetype. A structural hallmark of an Nt polyamide*dsDNA complex is a more significant degree of major groove compression of the target dsDNA sequence relative to the Im-containing hairpin polyamide. | ||
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| + | Structural basis of DNA duplex distortion induced by thiazole-containing hairpin polyamides.,Padroni G, Parkinson JA, Fox KR, Burley GA Nucleic Acids Res. 2017 Nov 29. pii: 4670956. doi: 10.1093/nar/gkx1211. PMID:29194552<ref>PMID:29194552</ref> | ||
| + | |||
| + | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | ||
| + | </div> | ||
| + | <div class="pdbe-citations 5oe1" style="background-color:#fffaf0;"></div> | ||
| + | == References == | ||
| + | <references/> | ||
__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
| - | [[Category: | + | [[Category: Homo sapiens]] |
| - | [[Category: | + | [[Category: Large Structures]] |
| - | [[Category: | + | [[Category: Burley GA]] |
| - | [[Category: | + | [[Category: Padroni G]] |
| - | [[Category: | + | [[Category: Parkinson J]] |
| - | + | ||
Current revision
Im polyamide in complex with 5'CGATGTACATCG3'- hairpin polyamides studies
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