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[[Image:1ply.gif|left|200px]]<br /><applet load="1ply" size="350" color="white" frame="true" align="right" spinBox="true"
caption="1ply, resolution 3.2&Aring;" />
'''SODIUM IONS AND WATER MOLECULES IN THE STRUCTURE OF POLY D(A)(DOT)POLY D(T)'''<br />


==Overview==
==SODIUM IONS AND WATER MOLECULES IN THE STRUCTURE OF POLY D(A)(DOT)POLY D(T)==
Analysis of X-ray diffraction data from a polycrystalline and well oriented fiber of the sodium salt of poly(dA).poly(dT) shows that this B'-DNA corresponds to a right-handed antiparallel tenfold double-helix of pitch 32.4 A, with C2'-endo furanose rings in both strands. The helix contrasts itself from B-DNA in terms of a very narrow minor groove. Difference electron-density maps have revealed that a continuous spine of water molecules, two per base pair, propagates along this groove with the same symmetry as the DNA and establishes new links between the two strands. In addition to this hydrated DNA helix, the monoclinic unit cell (space group P2(1)) accommodates about 20 sodium ions and 12 water molecules in the vicinity of phosphate groups. These structured guest molecules provide an intricate network of bridges, ranging in size from a single sodium ion to a multiple sodium-water-water-sodium unit, connecting phosphate groups belonging to adjacent DNA helices. The crystallographic R value for this structure is 0.23 for a total of 102 reflections extending out to 3.2 A resolution.
<StructureSection load='1ply' size='340' side='right'caption='[[1ply]], [[Resolution|resolution]] 3.20&Aring;' scene=''>
 
== Structural highlights ==
==About this Structure==
<table><tr><td colspan='2'>[[1ply]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PLY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1PLY FirstGlance]. <br>
1PLY is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with <scene name='pdbligand=NA:'>NA</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PLY OCA].  
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Fiber diffraction, [[Resolution|Resolution]] 3.2&#8491;</td></tr>
 
<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>
==Reference==
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1ply FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ply OCA], [https://pdbe.org/1ply PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ply RCSB], [https://www.ebi.ac.uk/pdbsum/1ply PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ply ProSAT]</span></td></tr>
Sodium ions and water molecules in the structure of poly(dA).poly(dT)., Chandrasekaran R, Radha A, Park HS, Acta Crystallogr D Biol Crystallogr. 1995 Nov 1;51(Pt 6):1025-35. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=15299771 15299771]
</table>
[[Category: Protein complex]]
__TOC__
[[Category: Chandrasekaran, R.]]
</StructureSection>
[[Category: Park, H S.]]
[[Category: Large Structures]]
[[Category: Radha, A.]]
[[Category: Chandrasekaran R]]
[[Category: NA]]
[[Category: Park H-S]]
[[Category: dna]]
[[Category: Radha A]]
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 14:30:09 2008''

Latest revision as of 11:09, 14 February 2024

SODIUM IONS AND WATER MOLECULES IN THE STRUCTURE OF POLY D(A)(DOT)POLY D(T)SODIUM IONS AND WATER MOLECULES IN THE STRUCTURE OF POLY D(A)(DOT)POLY D(T)

Structural highlights

1ply is a 2 chain structure. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:Fiber diffraction, Resolution 3.2Å
Ligands:
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

1ply, resolution 3.20Å

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