|
|
| (10 intermediate revisions by the same user not shown) |
| Line 1: |
Line 1: |
| [[Image:1d26.gif|left|200px]]
| |
|
| |
|
| <!--
| | ==EFFECT OF A SINGLE 3'-METHYLENE PHOSPHONATE LINKAGE ON THE CONFORMATION OF AN A-DNA OCTAMER DOUBLE HELIX== |
| The line below this paragraph, containing "STRUCTURE_1d26", creates the "Structure Box" on the page.
| | <StructureSection load='1d26' size='340' side='right'caption='[[1d26]], [[Resolution|resolution]] 2.12Å' 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'>[[1d26]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1D26 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1D26 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]] 2.12Å</td></tr> |
| -->
| | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=G31:3-METHYL-2,3-DEOXY-GUANOSINE-5-MONOPHOSPHATE'>G31</scene></td></tr> |
| {{STRUCTURE_1d26| PDB=1d26 | SCENE= }}
| | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1d26 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1d26 OCA], [https://pdbe.org/1d26 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1d26 RCSB], [https://www.ebi.ac.uk/pdbsum/1d26 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1d26 ProSAT]</span></td></tr> |
| | | </table> |
| '''EFFECT OF A SINGLE 3'-METHYLENE PHOSPHONATE LINKAGE ON THE CONFORMATION OF AN A-DNA OCTAMER DOUBLE HELIX'''
| | __TOC__ |
| | | </StructureSection> |
| | | [[Category: Large Structures]] |
| ==Overview== | | [[Category: Heinemann U]] |
| The three-dimensional structure of the self-complementary DNA octamer d(GCCCGpGGC) has been determined in the crystalline state using X-ray diffraction data to a nominal resolutoin of 2.12 measured from a very small crystal at DESY, Hamburg. The structure was refined with stereochemical restraints to an R value of 17.1%. d(GCCCGpGGC), containing one single 3'-methylene phosphonate linkage (denoted p), forms an A-DNA double helix with strict dyad symmetry, that is distinct from canonical A-DNA by a wide open major groove and a small average base-pair inclination against the helix axis. The conformation of the unmodified control d(GCCCGGGC) is known from an X-ray analysis of isomorphous crystals (Heinemann et al. (1987) Nucleic Acids Res. 15, 9531-9550). Comparison of the two structures reveals only minor conformational differences, most notably in the pucker of the reduced deoxyribose. It is suggested that oligonucleotides with charged 3'-methylene phosphonate groups may form stable duplexes with complementary DNA or RNA strands rendering them candidates for use as gene-regulatory antisense probes.
| |
| | |
| ==About this Structure== | |
| Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1D26 OCA]. | |
| | |
| ==Reference==
| |
| Effect of a single 3'-methylene phosphonate linkage on the conformation of an A-DNA octamer double helix., Heinemann U, Rudolph LN, Alings C, Morr M, Heikens W, Frank R, Blocker H, Nucleic Acids Res. 1991 Feb 11;19(3):427-33. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/2011517 2011517]
| |
| [[Category: Heinemann, U.]] | |
| [[Category: A-dna]] | |
| [[Category: Double helix]] | |
| [[Category: Modified]] | |
| ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May 2 13:21:55 2008''
| |
