1z8v

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[[Image:1z8v.gif|left|200px]]
 
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{{Structure
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==The Structure of d(GGCCAATTGG) Complexed with Netropsin==
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|PDB= 1z8v |SIZE=350|CAPTION= <scene name='initialview01'>1z8v</scene>, resolution 1.75&Aring;
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<StructureSection load='1z8v' size='340' side='right'caption='[[1z8v]], [[Resolution|resolution]] 1.75&Aring;' scene=''>
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|SITE=
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== Structural highlights ==
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|LIGAND= <scene name='pdbligand=NT:NETROPSIN'>NT</scene>
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<table><tr><td colspan='2'>[[1z8v]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Z8V OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1Z8V FirstGlance]. <br>
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|ACTIVITY=
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.75&#8491;</td></tr>
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|GENE=
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<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>
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}}
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1z8v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1z8v OCA], [https://pdbe.org/1z8v PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1z8v RCSB], [https://www.ebi.ac.uk/pdbsum/1z8v PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1z8v ProSAT]</span></td></tr>
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</table>
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'''The Structure of d(GGCCAATTGG) Complexed with Netropsin'''
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__TOC__
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</StructureSection>
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[[Category: Large Structures]]
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==Overview==
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[[Category: Nam PC]]
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The structure of the complex between the minor groove binder netropsin and d(GGCCAATTGG) was determined via single-crystal X-ray techniques. The structure was refined to completion using refmac5.1.24, resulting in a residual R-factor of 20.0% (including 68 water molecules). Using crystal engineering and cryocooling techniques, the resolution could be enhanced to 1.75 A, resulting in an unambiguous determination of the drug conformation and orientation. As previously noticed, bifurcated hydrogen bonds are formed between the amide nitrogen atoms of the drug and the N3 and O2 atoms of A and T base pairs, respectively, clearly cataloging the structure to class I. As the bulky NH2 group on guanine was believed to prevent binding of the drug in the minor groove, the detailed nature of several of the amidinium and guanidinium end contacts were further investigated by ab initio quantum chemical methods.
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[[Category: Nguyen MT]]
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[[Category: Van Hecke K]]
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==About this Structure==
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[[Category: Van Meervelt L]]
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1Z8V 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=1Z8V OCA].
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==Reference==
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Netropsin interactions in the minor groove of d(GGCCAATTGG) studied by a combination of resolution enhancement and ab initio calculations., Van Hecke K, Nam PC, Nguyen MT, Van Meervelt L, FEBS J. 2005 Jul;272(14):3531-41. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/16008554 16008554]
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[[Category: Protein complex]]
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[[Category: Hecke, K Van.]]
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[[Category: Meervelt, L Van.]]
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[[Category: Nam, P C.]]
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[[Category: Nguyen, M T.]]
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[[Category: NT]]
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[[Category: b-dna double helix]]
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[[Category: base triplet]]
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[[Category: drug]]
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[[Category: minor groove binder]]
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[[Category: netropsin]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 15:32:34 2008''
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Current revision

The Structure of d(GGCCAATTGG) Complexed with Netropsin

PDB ID 1z8v

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