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| [[Image:261d.gif|left|200px]]<br /><applet load="261d" size="350" color="white" frame="true" align="right" spinBox="true"
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| caption="261d, resolution 2.400Å" />
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| '''CRYSTAL STRUCTURE OF THE DNA DECAMER D(CGCAATTGCG) COMPLEXED WITH THE MINOR GROOVE BINDING DRUG NETROPSIN'''<br />
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| ==Overview== | | ==CRYSTAL STRUCTURE OF THE DNA DECAMER D(CGCAATTGCG) COMPLEXED WITH THE MINOR GROOVE BINDING DRUG NETROPSIN== |
| The crystal structure of netropsin bound to the decamer d(CGCAATTGCG) has been determined at 2.4 A resolution. This is the first example of a crystal structure of netropsin bound to decamer DNA. The central eight bases of each DNA single-strand base pair with a self-complementary strand to form an octamer B-DNA duplex. These duplexes lie end to end within the unit cell. The terminal 5'-C and G-3' bases are unpaired and interact with the neighboring duplexes via interactions within both the major and minor groove to form base triplet interactions of the type C(+)-G x C and G*(G x C), respectively. The triplet interaction of the type C(+)-G x C is known to exist within triplex DNA with the C+ base oriented parallel with the Watson-Crick guanine base to which it hydrogen bonds. The netropsin molecule lies within the minor groove of the octamer duplex and assumes a class I type position, with bifurcated hydrogen-bonding interactions from the amide groups of the netropsin to the A x T base pairs of the minor groove. The netropsin molecule fits within a five base pair long minor groove site by bending of the flexible amidinium group at one end of the drug.
| | <StructureSection load='261d' size='340' side='right'caption='[[261d]], [[Resolution|resolution]] 2.40Å' scene=''> |
| | | == Structural highlights == |
| ==About this Structure== | | <table><tr><td colspan='2'>[[261d]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=261D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=261D FirstGlance]. <br> |
| 261D is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with <scene name='pdbligand=NT:'>NT</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=261D 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]] 2.4Å</td></tr> |
| | | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NT:NETROPSIN'>NT</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=261d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=261d OCA], [https://pdbe.org/261d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=261d RCSB], [https://www.ebi.ac.uk/pdbsum/261d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=261d ProSAT]</span></td></tr> |
| Crystal structure of the DNA decamer d(CGCAATTGCG) complexed with the minor groove binding drug netropsin., Nunn CM, Garman E, Neidle S, Biochemistry. 1997 Apr 22;36(16):4792-9. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=9125500 9125500]
| | </table> |
| [[Category: Protein complex]]
| | __TOC__ |
| [[Category: Garman, E.]]
| | </StructureSection> |
| [[Category: Neidle, S.]]
| | [[Category: Large Structures]] |
| [[Category: Nunn, C M.]]
| | [[Category: Garman E]] |
| [[Category: NT]]
| | [[Category: Neidle S]] |
| [[Category: b-dna]]
| | [[Category: Nunn CM]] |
| [[Category: complexed with drug]]
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| [[Category: continuous helix]] | |
| [[Category: double helix]] | |
| [[Category: flipped-out bases]] | |
| [[Category: intermolecular base triplet]] | |
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| ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 16:21:55 2008''
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