192d: Difference between revisions

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[[Image:192d.gif|left|200px]]


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==RECOMBINATION-LIKE STRUCTURE OF D(CCGCGG)==
The line below this paragraph, containing "STRUCTURE_192d", creates the "Structure Box" on the page.
<StructureSection load='192d' size='340' side='right'caption='[[192d]], [[Resolution|resolution]] 1.92&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'>[[192d]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=192D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=192D 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]] 1.92&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
{{STRUCTURE_192d|  PDB=192d  |  SCENE= }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=192d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=192d OCA], [https://pdbe.org/192d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=192d RCSB], [https://www.ebi.ac.uk/pdbsum/192d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=192d ProSAT]</span></td></tr>
 
</table>
'''RECOMBINATION-LIKE STRUCTURE OF D(CCGCGG)'''
__TOC__
 
</StructureSection>
 
[[Category: Large Structures]]
==Overview==
[[Category: Huynh-Dinh T]]
We have solved the single crystal X-ray structure of the synthetic DNA hexamer d(CCGCGG). The central alternating tetramer forms a Z-DNA duplex. The initial cytosine of each strand of the duplex swings out and forms a Watson-Crick base-pair with the terminal guanine of a symmetry-related molecule. Thus, two symmetry-related DNA molecules form a twin with intermolecular base-pairs at both ends. Such a twin is additionally stabilized by a sodium ion located on a dyad axis between two DNA duplexes. The total structure has recombination-like features. It also provides a model for B/Z junctions. The crystal used in this study belongs to space group C222(1) with a = 34.33 A, b = 44.04 A and c = 38.27 A. The structure was solved by molecular replacement using partial models, and refined by molecular dynamics simulated annealing and positional treatment. The refinement has been concluded with an R-factor of 18.5% for 2377 reflections with F &gt; or = 2 sigma (F) in the resolution region 8.0 to 1.92 A. The asymmetric unit contains two strands of d(CCGCGG) and 38 water molecules.
[[Category: Malinina L]]
 
[[Category: Salas X]]
==About this Structure==
[[Category: Subirana JA]]
Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=192D OCA].  
[[Category: Urpi L]]
 
==Reference==
Recombination-like structure of d(CCGCGG)., Malinina L, Urpi L, Salas X, Huynh-Dinh T, Subirana JA, J Mol Biol. 1994 Oct 28;243(3):484-93. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/7966274 7966274]
[[Category: Huynh-Dinh, T.]]
[[Category: Malinina, L.]]
[[Category: Salas, X.]]
[[Category: Subirana, J A.]]
[[Category: Urpi, L.]]
[[Category: Double helix]]
[[Category: Flipped-out base]]
[[Category: Z-dna]]
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May  2 09:35:06 2008''
Retrieved from "https://proteopedia.org/192d"