233d: Difference between revisions

From Proteopedia
Jump to navigation Jump to search
← Older edit
No edit summary
No edit summary
 
(2 intermediate revisions by the same user not shown)
Line 3: Line 3:
<StructureSection load='233d' size='340' side='right'caption='[[233d]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
<StructureSection load='233d' size='340' side='right'caption='[[233d]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[233d]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=233D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=233D FirstGlance]. <br>
<table><tr><td colspan='2'>[[233d]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=233D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=233D FirstGlance]. <br>
</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=T49:S4-2DEOXYTHYMIDINE+5-MONOPHOSPHATE'>T49</scene></td></tr>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.4&#8491;</td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=233d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=233d OCA], [http://pdbe.org/233d PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=233d RCSB], [http://www.ebi.ac.uk/pdbsum/233d PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=233d ProSAT]</span></td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=T49:S4-2DEOXYTHYMIDINE+5-MONOPHOSPHATE'>T49</scene></td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=233d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=233d OCA], [https://pdbe.org/233d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=233d RCSB], [https://www.ebi.ac.uk/pdbsum/233d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=233d ProSAT]</span></td></tr>
</table>
</table>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
The crystal structure refinement of the synthetic dodecamer d(CGCGAASSCGCG), where S = 4'-thio-2'-deoxythymidine, has converged at R=0.201 for 2605 reflections with F &gt; 2sigma(F) in the resolution range 8.0-2.4 A for a model consisting of the dodecamer duplex and 66 water molecules. A comparison of its structure with that of the native dodecamer d(CGCGAATTCGCG) has revealed that the major differences between the two structures is a change in the conformation of the sugar-phosphate backbone in the regions at and adjacent to the positions of the modified nucleosides. Examination of the fine structural parameters for each of the structures reveals that the thiosugars adopt a C3'-exo conformation in d(CGCGAASSCGCG), rather than the approximate C1'-exo conformation found for the analogous sugars in the structure of d(CGCGAATTCGCG). The observed differences in structure between the two duplexes may help to explain the enhanced resistance to nuclease digestion of synthetic oligonucleotides containing 4'-thio-2'-deoxynucleotides.
The crystal structure analysis of d(CGCGAASSCGCG)2, a synthetic DNA dodecamer duplex containing four 4'-thio-2'-deoxythymidine nucleotides.,Boggon TJ, Hancox EL, McAuley-Hecht KE, Connolly BA, Hunter WN, Brown T, Walker RT, Leonard GA Nucleic Acids Res. 1996 Mar 1;24(5):951-61. PMID:8600465<ref>PMID:8600465</ref>
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 233d" style="background-color:#fffaf0;"></div>
== References ==
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Large Structures]]
[[Category: Large Structures]]
[[Category: Boggon, T J]]
[[Category: Boggon TJ]]
[[Category: Brown, T]]
[[Category: Brown T]]
[[Category: Connolly, B A]]
[[Category: Connolly BA]]
[[Category: Hancox, E L]]
[[Category: Hancox EL]]
[[Category: Hunter, W N]]
[[Category: Hunter WN]]
[[Category: Leonard, G A]]
[[Category: Leonard GA]]
[[Category: McAuley-Hecht, K E]]
[[Category: McAuley-Hecht KE]]
[[Category: Walker, R T]]
[[Category: Walker RT]]
[[Category: B-dna]]
[[Category: Dna]]
[[Category: Double helix]]
[[Category: Modified]]

Latest revision as of 12:08, 14 February 2024

THE CRYSTAL STRUCTURE ANALYSIS OF D(CGCGAASSCGCG)2: A SYNTHETIC DNA DODECAMER DUPLEX CONTAINING FOUR 4'-THIO-2'-DEOXYTHYMIDINE NUCLEOTIDESTHE CRYSTAL STRUCTURE ANALYSIS OF D(CGCGAASSCGCG)2: A SYNTHETIC DNA DODECAMER DUPLEX CONTAINING FOUR 4'-THIO-2'-DEOXYTHYMIDINE NUCLEOTIDES

Structural highlights

233d is a 2 chain structure. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 2.4Å
Ligands:
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

233d, resolution 2.40Å

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA
Retrieved from "https://proteopedia.openfox.io/wiki/index.php?title=233d&oldid=4057498"