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New page: left|200px<br /><applet load="1da3" size="450" color="white" frame="true" align="right" spinBox="true" caption="1da3, resolution 2.000Å" /> '''THE CRYSTAL STRUCTU...
 
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[[Image:1da3.gif|left|200px]]<br /><applet load="1da3" size="450" color="white" frame="true" align="right" spinBox="true"
caption="1da3, resolution 2.000&Aring;" />
'''THE CRYSTAL STRUCTURE OF THE TRIGONAL DECAMER C-G-A-T-C-G-6MEA-T-C-G: A B-DNA HELIX WITH 10.6 BASE-PAIRS PER TURN'''<br />


==Overview==
==THE CRYSTAL STRUCTURE OF THE TRIGONAL DECAMER C-G-A-T-C-G-6MEA-T-C-G: A B-DNA HELIX WITH 10.6 BASE-PAIRS PER TURN==
The B-DNA decanucleotide C-G-A-T-C-G-6meA-T-C-G has been crystallized, under the same conditions used earlier for C-G-A-T-C-G-A-T-C-G, but is, found to adopt a new trigonal P3(2)21 packing mode instead of the expected, orthorhombic P2(1)2(1)2(1) form. Unit cell dimensions a = b = 33.38 A, c =, 98.30 A, gamma = 120 degrees, imply ten base-pairs or one complete decamer, double helix per asymmetric unit. The 2282 two-sigma data to 2.0 A refine, to R = 17.2% with 45 water molecules, 1.5 hexavalent hydrated magnesium, complexes, and 0.5 chloride ion per asymmetric unit. Neighboring helices, interlock backbone chains and major grooves, crossing at an angle of 120, degrees in a manner that yields an excellent model for a Holliday, junction. Local helix parameters differ markedly in the trigonal and, orthorhombic structures, with the trigonal helix exhibiting behavior, closer to that expected of B-DNA in solution. The trigonal form has an, average of 10.6 base-pairs per turn, in contrast to 9.7 base-pairs per, turn in the orthorhombic cell. A comparison of all known B-DNA decamer and, dodecamer crystal structure analyses indicates that, the greater the cell, volume per base-pair (and hence the more open the crystal structure), the, closer the mean helix twist approaches an expected 10.6 base-pairs per, turn.
<StructureSection load='1da3' size='340' side='right'caption='[[1da3]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
 
== Structural highlights ==
==About this Structure==
<table><tr><td colspan='2'>[[1da3]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DA3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1DA3 FirstGlance]. <br>
1DA3 is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with CL and MG as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1DA3 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&#8491;</td></tr>
 
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=6MA:N6-METHYL-DEOXY-ADENOSINE-5-MONOPHOSPHATE'>6MA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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=1da3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1da3 OCA], [https://pdbe.org/1da3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1da3 RCSB], [https://www.ebi.ac.uk/pdbsum/1da3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1da3 ProSAT]</span></td></tr>
The crystal structure of the trigonal decamer C-G-A-T-C-G-6meA-T-C-G: a B-DNA helix with 10.6 base-pairs per turn., Baikalov I, Grzeskowiak K, Yanagi K, Quintana J, Dickerson RE, J Mol Biol. 1993 Jun 5;231(3):768-84. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=8515450 8515450]
</table>
[[Category: Protein complex]]
__TOC__
[[Category: Baikalov, I.]]
</StructureSection>
[[Category: Dickerson, R.E.]]
[[Category: Large Structures]]
[[Category: Grzeskowiak, K.]]
[[Category: Baikalov I]]
[[Category: Quintana, J.]]
[[Category: Dickerson RE]]
[[Category: Yanagi, K.]]
[[Category: Grzeskowiak K]]
[[Category: CL]]
[[Category: Quintana J]]
[[Category: MG]]
[[Category: Yanagi K]]
[[Category: b-dna]]
[[Category: double helix]]
[[Category: modified]]
 
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Sun Nov 25 02:52:02 2007''

Latest revision as of 06:51, 7 February 2024

THE CRYSTAL STRUCTURE OF THE TRIGONAL DECAMER C-G-A-T-C-G-6MEA-T-C-G: A B-DNA HELIX WITH 10.6 BASE-PAIRS PER TURN

1da3, resolution 2.00Å

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