293d: Difference between revisions

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[[Image:293d.gif|left|200px]]


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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==
The line below this paragraph, containing "STRUCTURE_293d", creates the "Structure Box" on the page.
<StructureSection load='293d' size='340' side='right'caption='[[293d]], [[Resolution|resolution]] 1.00&Aring;' scene=''>
You may change the PDB parameter (which sets the PDB file loaded into the applet)
== Structural highlights ==
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
<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>
or leave the SCENE parameter empty for the default display.
</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>
-->
<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>
{{STRUCTURE_293d|  PDB=293d  |  SCENE= }}
<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>
 
</table>
'''INTERACTION BETWEEN THE LEFT-HANDED Z-DNA AND POLYAMINE-2: THE CRYSTAL STRUCTURE OF THE D(CG)3 AND SPERMIDINE COMPLEX'''
__TOC__
 
</StructureSection>
 
[[Category: Large Structures]]
==Overview==
[[Category: Hakoshima T]]
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.
[[Category: Inubushi K]]
 
[[Category: Nakanishi I]]
==About this Structure==
[[Category: Ohishi H]]
Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=293D OCA].  
[[Category: Rich A]]
 
[[Category: Tomita K]]
==Reference==
[[Category: Van Boom JH]]
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]
[[Category: Van Der Marel GA]]
[[Category: Boom, J H.Van.]]
[[Category: Wang AH-J]]
[[Category: Hakoshima, T.]]
[[Category: Inubushi, K.]]
[[Category: Marel, G A.Van Der.]]
[[Category: Nakanishi, I.]]
[[Category: Ohishi, H.]]
[[Category: Rich, A.]]
[[Category: Tomita, K.]]
[[Category: Wang, A H.J.]]
[[Category: Complexed with spermidine]]
[[Category: Double helix]]
[[Category: Z-dna]]
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May  3 18:25:58 2008''

Latest revision as of 09:10, 14 February 2024

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

293d, resolution 1.00Å

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