198d: Difference between revisions

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New page: left|200px<br /><applet load="198d" size="450" color="white" frame="true" align="right" spinBox="true" caption="198d, resolution 1.970Å" /> '''A TRIGONAL FORM OF ...
 
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[[Image:198d.gif|left|200px]]<br /><applet load="198d" size="450" color="white" frame="true" align="right" spinBox="true"
caption="198d, resolution 1.970&Aring;" />
'''A TRIGONAL FORM OF THE IDARUBICIN-D(CGATCG) COMPLEX: CRYSTAL AND MOLECULAR STRUCTURE AT 2.0 ANGSTROMS RESOLUTION'''<br />


==Overview==
==A TRIGONAL FORM OF THE IDARUBICIN-D(CGATCG) COMPLEX: CRYSTAL AND MOLECULAR STRUCTURE AT 2.0 ANGSTROMS RESOLUTION==
The X-ray crystal structure of the complex between the anthracycline, idarubicin and d(CGATCG) has been solved by molecular replacement and, refined to a resolution of 2.0 A. The final R-factor is 0.19 for 3768, reflections with Fo &gt; or = 2 sigma (Fo). The complex crystallizes in the, trigonal space group P31 with unit cell parameters a = b = 52.996(4), c =, 33.065(2) A, alpha = beta = 90 degree, gamma = 120 degree. The asymmetric, unit consists of two duplexes, each one being complexed with two, idarubicin drugs intercalated at the CpG steps, one spermine and 160 water, molecules. The molecular packing underlines major groove-major groove, interactions between neighbouring helices, and an unusually low value of, the occupied fraction of the unit cell due to a large solvent channel of, approximately 30 A diameter. This is the first trigonal crystal form of a, DNA-anthracycline complex. The structure is compared with the previously, reported structure of the same complex crystallizing in a tetragonal form., The geometry of both the double helices and the intercalation site are, conserved as are the intramolecular interactions despite the different, crystal forms.
<StructureSection load='198d' size='340' side='right'caption='[[198d]], [[Resolution|resolution]] 1.97&Aring;' scene=''>
 
== Structural highlights ==
==About this Structure==
<table><tr><td colspan='2'>[[198d]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=198D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=198D FirstGlance]. <br>
198D is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with DM5 and SPM as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=198D 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]] 1.97&#8491;</td></tr>
 
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DM5:IDARUBICIN'>DM5</scene>, <scene name='pdbligand=SPM:SPERMINE'>SPM</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=198d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=198d OCA], [https://pdbe.org/198d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=198d RCSB], [https://www.ebi.ac.uk/pdbsum/198d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=198d ProSAT]</span></td></tr>
A trigonal form of the idarubicin:d(CGATCG) complex; crystal and molecular structure at 2.0 A resolution., Dautant A, Langlois d'Estaintot B, Gallois B, Brown T, Hunter WN, Nucleic Acids Res. 1995 May 25;23(10):1710-6. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=7784175 7784175]
</table>
[[Category: Protein complex]]
__TOC__
[[Category: Brown, T.]]
</StructureSection>
[[Category: Dautant, A.]]
[[Category: Large Structures]]
[[Category: Estaintot, B.Langlois.D.]]
[[Category: Brown T]]
[[Category: Gallois, B.]]
[[Category: Dautant A]]
[[Category: Hunter, W.N.]]
[[Category: Gallois B]]
[[Category: DM5]]
[[Category: Hunter WN]]
[[Category: SPM]]
[[Category: Langlois D'Estaintot B]]
[[Category: complexed with drug]]
[[Category: double helix]]
[[Category: right handed dna]]
 
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Sat Nov 24 22:13:55 2007''

Latest revision as of 09:26, 7 February 2024

A TRIGONAL FORM OF THE IDARUBICIN-D(CGATCG) COMPLEX: CRYSTAL AND MOLECULAR STRUCTURE AT 2.0 ANGSTROMS RESOLUTIONA TRIGONAL FORM OF THE IDARUBICIN-D(CGATCG) COMPLEX: CRYSTAL AND MOLECULAR STRUCTURE AT 2.0 ANGSTROMS RESOLUTION

Structural highlights

198d is a 4 chain structure. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 1.97Å
Ligands:,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

198d, resolution 1.97Å

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