310d: Difference between revisions

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New page: left|200px<br /><applet load="310d" size="350" color="white" frame="true" align="right" spinBox="true" caption="310d, resolution 1.300Å" /> '''CRYSTAL STRUCTURE O...
 
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[[Image:310d.jpg|left|200px]]<br /><applet load="310d" size="350" color="white" frame="true" align="right" spinBox="true"
caption="310d, resolution 1.300&Aring;" />
'''CRYSTAL STRUCTURE OF 2'-O-ME(CGCGCG)2: AN RNA DUPLEX AT 1.3 A RESOLUTION. HYDRATION PATTERN OF 2'-O-METHYLATED RNA'''<br />


==Overview==
==Crystal structure of 2'-O-Me(CGCGCG)2: an RNA duplex at 1.3 A resolution. Hydration pattern of 2'-O-methylated RNA==
The molecular and crystal structure of 2'-O-Me (CGCGCG)2 has been, determined using synchrotron radiation at near-atomic resolution (1.30 A), the highest resolution to date in the RNA field. The crystal structure is, a half-turn A-type helix with some helical parameters deviating from, canonical A-RNA, such as low base pair rise, elevated helical twist and, inclination angles. In CG steps, inter-strand guanines are parallel while, cytosines are not parallel. In steps GC this motif is reversed. This type, of regularity is not seen in other RNA crystal structures. The structure, includes 44 water molecules and two hydrated Mg2+ions one of which lies, exactly on the crystallographic 2-fold axis. There are distinct patterns, of hydration in the major and the minor grooves. The major groove is, stabilised by water clusters consisting of fused five- and six-membered, rings. Minor groove contains only a single row of water molecules; each, water bridges either two self-parallel cytosines or two self-parallel, guanines by a pair of hydrogen bonds. The structure provides the first, view of the hydration scheme of 2'-O-methylated RNA duplex.
<StructureSection load='310d' size='340' side='right'caption='[[310d]], [[Resolution|resolution]] 1.30&Aring;' scene=''>
 
== Structural highlights ==
==About this Structure==
<table><tr><td colspan='2'>[[310d]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=310D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=310D FirstGlance]. <br>
310D is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with <scene name='pdbligand=MG:'>MG</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=310D 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]] 1.3&#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=OMC:O2-METHYLYCYTIDINE-5-MONOPHOSPHATE'>OMC</scene>, <scene name='pdbligand=OMG:O2-METHYLGUANOSINE-5-MONOPHOSPHATE'>OMG</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=310d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=310d OCA], [https://pdbe.org/310d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=310d RCSB], [https://www.ebi.ac.uk/pdbsum/310d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=310d ProSAT]</span></td></tr>
Crystal structure of 2'-O-Me(CGCGCG)2, an RNA duplex at 1.30 A resolution. Hydration pattern of 2'-O-methylated RNA., Adamiak DA, Milecki J, Popenda M, Adamiak RW, Dauter Z, Rypniewski WR, Nucleic Acids Res. 1997 Nov 15;25(22):4599-607. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=9358171 9358171]
</table>
[[Category: Protein complex]]
__TOC__
[[Category: Adamiak, D.A.]]
</StructureSection>
[[Category: Adamiak, R.W.]]
[[Category: Large Structures]]
[[Category: Dauter, Z.]]
[[Category: Synthetic construct]]
[[Category: Milecki, J.]]
[[Category: Adamiak DA]]
[[Category: Rypniewski, W.R.]]
[[Category: Adamiak RW]]
[[Category: MG]]
[[Category: Dauter Z]]
[[Category: a-rna]]
[[Category: Milecki J]]
[[Category: double helix]]
[[Category: Rypniewski WR]]
[[Category: modified]]
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jan 29 21:34:44 2008''

Latest revision as of 09:25, 21 February 2024

Crystal structure of 2'-O-Me(CGCGCG)2: an RNA duplex at 1.3 A resolution. Hydration pattern of 2'-O-methylated RNA

310d, resolution 1.30Å

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