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[[Image:1eek.gif|left|200px]]


{{Structure
==SOLUTION STRUCTURE OF A NONPOLAR, NON HYDROGEN BONDED BASE PAIR SURROGATE IN DNA.==
|PDB= 1eek |SIZE=350|CAPTION= <scene name='initialview01'>1eek</scene>
<StructureSection load='1eek' size='340' side='right'caption='[[1eek]]' scene=''>
|SITE=  
== Structural highlights ==
|LIGAND= <scene name='pdbligand=DA:2&#39;-DEOXYADENOSINE-5&#39;-MONOPHOSPHATE'>DA</scene>, <scene name='pdbligand=DC:2&#39;-DEOXYCYTIDINE-5&#39;-MONOPHOSPHATE'>DC</scene>, <scene name='pdbligand=DFT:1-[2-DEOXYRIBOFURANOSYL]-2,4-DIFLUORO-5-METHYL-BENZENE-5&#39;MONOPHOSPHATE'>DFT</scene>, <scene name='pdbligand=DG:2&#39;-DEOXYGUANOSINE-5&#39;-MONOPHOSPHATE'>DG</scene>, <scene name='pdbligand=DT:THYMIDINE-5&#39;-MONOPHOSPHATE'>DT</scene>, <scene name='pdbligand=MBZ:1-[2-DEOXYRIBOFURANOSYL]-4-METHYL-BENZOIMIDAZOLE-5&#39;-MONOPHOSPHATE'>MBZ</scene>
<table><tr><td colspan='2'>[[1eek]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1EEK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1EEK FirstGlance]. <br>
|ACTIVITY=  
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr>
|GENE=  
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DFT:1-[2-DEOXYRIBOFURANOSYL]-2,4-DIFLUORO-5-METHYL-BENZENE-5MONOPHOSPHATE'>DFT</scene>, <scene name='pdbligand=MBZ:1-[2-DEOXYRIBOFURANOSYL]-4-METHYL-BENZOIMIDAZOLE-5-MONOPHOSPHATE'>MBZ</scene></td></tr>
|DOMAIN=
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1eek FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1eek OCA], [https://pdbe.org/1eek PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1eek RCSB], [https://www.ebi.ac.uk/pdbsum/1eek PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1eek ProSAT]</span></td></tr>
|RELATEDENTRY=[[1bw7|1BW7]]
</table>
|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1eek FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1eek OCA], [http://www.ebi.ac.uk/pdbsum/1eek PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1eek RCSB]</span>
<div style="background-color:#fffaf0;">
}}
== Publication Abstract from PubMed ==
We describe the structure in aqueous solution of a DNA duplex containing a base pair that is structurally analogous to A-T but which lacks hydrogen bonds. Base analogues F (a nonpolar isostere of thymine) and Z (a nonpolar isostere of adenine) are paired opposite one another in a 12 base pair duplex. The sequence context is the binding site of recently studied transcription factor hSRY. The Z-F pair has been shown to be replicated surprisingly well and selectively by DNA polymerase enzymes, considering that it is destabilizing and lacks Watson-Crick hydrogen bonds. The enzymatic studies led to the suggestion that part of the functional activity arises because the pair resembles a natural one in geometry. The present results show that, despite the absence of Watson-Crick hydrogen bonds, the Z-F pair structurally resembles an A-T pair in the same context. This lends support to the proposal that shape matching is an important component in replication, and suggests the general utility of using Z-F as a nonpolar replacement for A-T in probing protein-DNA interactions.


'''SOLUTION STRUCTURE OF A NONPOLAR, NON HYDROGEN BONDED BASE PAIR SURROGATE IN DNA.'''
Solution Structure of a Nonpolar, Non-Hydrogen-Bonded Base Pair Surrogate in DNA.,Guckian KM, Krugh TR, Kool ET J Am Chem Soc. 2000 Jul 26;122(29):6841-6847. doi: 10.1021/ja994164v. PMID:20882115<ref>PMID:20882115</ref>


 
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
==About this Structure==
</div>
1EEK is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1EEK OCA].
<div class="pdbe-citations 1eek" style="background-color:#fffaf0;"></div>
[[Category: Protein complex]]
== References ==
[[Category: Guckian, K M.]]
<references/>
[[Category: Kool, E T.]]
__TOC__
[[Category: Krugh, T R.]]
</StructureSection>
[[Category: dna]]
[[Category: Large Structures]]
[[Category: dna base analog]]
[[Category: Guckian KM]]
[[Category: isosteric]]
[[Category: Kool ET]]
[[Category: nonpolar]]
[[Category: Krugh TR]]
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 20:00:56 2008''
Retrieved from "https://proteopedia.org/1eek"