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| - | [[Image:233d.gif|left|200px]] | |
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| - | {{Structure
| + | ==THE CRYSTAL STRUCTURE ANALYSIS OF D(CGCGAASSCGCG)2: A SYNTHETIC DNA DODECAMER DUPLEX CONTAINING FOUR 4'-THIO-2'-DEOXYTHYMIDINE NUCLEOTIDES== |
| - | |PDB= 233d |SIZE=350|CAPTION= <scene name='initialview01'>233d</scene>, resolution 2.400Å
| + | <StructureSection load='233d' size='340' side='right'caption='[[233d]], [[Resolution|resolution]] 2.40Å' scene=''> |
| - | |SITE=
| + | == Structural highlights == |
| - | |LIGAND= <scene name='pdbligand=DA:2'-DEOXYADENOSINE-5'-MONOPHOSPHATE'>DA</scene>, <scene name='pdbligand=DC:2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE'>DC</scene>, <scene name='pdbligand=DG:2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE'>DG</scene>, <scene name='pdbligand=T49:S4'-2'DEOXYTHYMIDINE+5'-MONOPHOSPHATE'>T49</scene>
| + | <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> |
| - | |ACTIVITY=
| + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.4Å</td></tr> |
| - | |GENE=
| + | <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> |
| - | |DOMAIN=
| + | <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> |
| - | |RELATEDENTRY=
| + | </table> |
| - | |RESOURCES=<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://www.ebi.ac.uk/pdbsum/233d PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=233d RCSB]</span>
| + | __TOC__ |
| - | }}
| + | </StructureSection> |
| - | | + | [[Category: Large Structures]] |
| - | '''THE CRYSTAL STRUCTURE ANALYSIS OF D(CGCGAASSCGCG)2: A SYNTHETIC DNA DODECAMER DUPLEX CONTAINING FOUR 4'-THIO-2'-DEOXYTHYMIDINE NUCLEOTIDES'''
| + | [[Category: Boggon TJ]] |
| - | | + | [[Category: Brown T]] |
| - | | + | [[Category: Connolly BA]] |
| - | ==Overview==
| + | [[Category: Hancox EL]] |
| - | 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 > 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.
| + | [[Category: Hunter WN]] |
| - | | + | [[Category: Leonard GA]] |
| - | ==About this Structure==
| + | [[Category: McAuley-Hecht KE]] |
| - | 233D is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=233D OCA].
| + | [[Category: Walker RT]] |
| - | | + | |
| - | ==Reference==
| + | |
| - | 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:[http://www.ncbi.nlm.nih.gov/pubmed/8600465 8600465]
| + | |
| - | [[Category: Protein complex]] | + | |
| - | [[Category: Boggon, T J.]] | + | |
| - | [[Category: Brown, T.]] | + | |
| - | [[Category: Connolly, B A.]] | + | |
| - | [[Category: Hancox, E L.]] | + | |
| - | [[Category: Hunter, W N.]] | + | |
| - | [[Category: Leonard, G A.]] | + | |
| - | [[Category: McAuley-Hecht, K E.]] | + | |
| - | [[Category: Walker, R T.]] | + | |
| - | [[Category: b-dna]]
| + | |
| - | [[Category: double helix]]
| + | |
| - | [[Category: modified]]
| + | |
| - | | + | |
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 01:44:51 2008''
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