293d

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[[Image:293d.gif|left|200px]]
 
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{{Structure
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==INTERACTION BETWEEN THE LEFT-HANDED Z-DNA AND POLYAMINE-2: THE CRYSTAL STRUCTURE OF THE D(CG)3 AND SPERMIDINE COMPLEX==
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|PDB= 293d |SIZE=350|CAPTION= <scene name='initialview01'>293d</scene>, resolution 1.000&Aring;
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<StructureSection load='293d' size='340' side='right'caption='[[293d]], [[Resolution|resolution]] 1.00&Aring;' scene=''>
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|SITE=
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== Structural highlights ==
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|LIGAND= <scene name='pdbligand=DC:2&#39;-DEOXYCYTIDINE-5&#39;-MONOPHOSPHATE'>DC</scene>, <scene name='pdbligand=DG:2&#39;-DEOXYGUANOSINE-5&#39;-MONOPHOSPHATE'>DG</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=SPD:SPERMIDINE'>SPD</scene>
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<table><tr><td colspan='2'>[[293d]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=293D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=293D 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&#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=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=SPD:SPERMIDINE'>SPD</scene></td></tr>
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|DOMAIN=
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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=293d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=293d OCA], [https://pdbe.org/293d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=293d RCSB], [https://www.ebi.ac.uk/pdbsum/293d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=293d ProSAT]</span></td></tr>
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|RELATEDENTRY=
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</table>
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|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=293d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=293d OCA], [http://www.ebi.ac.uk/pdbsum/293d PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=293d RCSB]</span>
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__TOC__
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}}
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</StructureSection>
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[[Category: Large Structures]]
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'''INTERACTION BETWEEN THE LEFT-HANDED Z-DNA AND POLYAMINE-2: THE CRYSTAL STRUCTURE OF THE D(CG)3 AND SPERMIDINE COMPLEX'''
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[[Category: Hakoshima T]]
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[[Category: Inubushi K]]
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[[Category: Nakanishi I]]
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==Overview==
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[[Category: Ohishi H]]
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This paper deals with the crystal structure of d(CG)3-spermidine complex. The DNA fragment, d(CG)3, was crystallized with N-(2-amino-propyl)-1,4-diamino-butane, PA(34), spermidine. The results of its X-ray crystallographic analysis showed many intermolecular contacts between d(CG)3 and spermidine, but the binding mode of spermidine to the d(CG)3 molecule is different from that of the d(CG)3 and N-(2-amino-ethyl)-1,4-diamino-butane [PA(24)] complex: a spermidine molecule bound to the d(CG)3 and its symmetrically related neighboring d(CG)3 molecules through the water molecules with hydrogen bonds, while one PA(24) molecule connected directly to one d(CG)3 molecule, but not to its neighboring d(CG)3 molecule. In the crystal, the d(CG)3 molecule was the left-handed Z-form, and three magnesium cations and a sodium cation were observed around the d(CG)3 moiety with different binding modes from the case of the d(CG)3-PA(24) complex.
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[[Category: Rich A]]
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[[Category: Tomita K]]
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==About this Structure==
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[[Category: Van Boom JH]]
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293D 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=293D OCA].
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[[Category: Van Der Marel GA]]
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[[Category: Wang AH-J]]
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==Reference==
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Interaction between the left-handed Z-DNA and polyamine-2. The crystal structure of the d(CG)3 and spermidine complex., Ohishi H, Nakanishi I, Inubushi K, van der Marel G, van Boom JH, Rich A, Wang AH, Hakoshima T, Tomita K, FEBS Lett. 1996 Aug 5;391(1-2):153-6. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/8706905 8706905]
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[[Category: Protein complex]]
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[[Category: Boom, J H.Van.]]
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[[Category: Hakoshima, T.]]
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[[Category: Inubushi, K.]]
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[[Category: Marel, G A.Van Der.]]
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[[Category: Nakanishi, I.]]
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[[Category: Ohishi, H.]]
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[[Category: Rich, A.]]
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[[Category: Tomita, K.]]
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[[Category: Wang, A H.J.]]
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[[Category: complexed with spermidine]]
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[[Category: double helix]]
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[[Category: z-dna]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 01:46:01 2008''
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Current revision

INTERACTION BETWEEN THE LEFT-HANDED Z-DNA AND POLYAMINE-2: THE CRYSTAL STRUCTURE OF THE D(CG)3 AND SPERMIDINE COMPLEX

PDB ID 293d

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