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| - | [[Image:331d.gif|left|200px]] | |
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| - | {{Structure
| + | ==CRYSTAL STRUCTURE OF D(GCGCGCG) WITH 5'-OVERHANG G'S== |
| - | |PDB= 331d |SIZE=350|CAPTION= <scene name='initialview01'>331d</scene>, resolution 1.650Å
| + | <StructureSection load='331d' size='340' side='right'caption='[[331d]], [[Resolution|resolution]] 1.65Å' scene=''> |
| - | |SITE=
| + | == Structural highlights == |
| - | |LIGAND= <scene name='pdbligand=DC:2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE'>DC</scene>, <scene name='pdbligand=DG:2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE'>DG</scene>, <scene name='pdbligand=NCO:COBALT+HEXAMMINE+ION'>NCO</scene>
| + | <table><tr><td colspan='2'>[[331d]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=331D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=331D 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]] 1.65Å</td></tr> |
| - | |GENE=
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NCO:COBALT+HEXAMMINE(III)'>NCO</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=331d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=331d OCA], [https://pdbe.org/331d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=331d RCSB], [https://www.ebi.ac.uk/pdbsum/331d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=331d ProSAT]</span></td></tr> |
| - | |RELATEDENTRY=
| + | </table> |
| - | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=331d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=331d OCA], [http://www.ebi.ac.uk/pdbsum/331d PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=331d RCSB]</span>
| + | __TOC__ |
| - | }}
| + | </StructureSection> |
| - | | + | [[Category: Large Structures]] |
| - | '''CRYSTAL STRUCTURE OF D(GCGCGCG) WITH 5'-OVERHANG G'S'''
| + | [[Category: Ban C]] |
| - | | + | [[Category: Pan B]] |
| - | | + | [[Category: Sundaralingam M]] |
| - | ==Overview==
| + | [[Category: Wahl M]] |
| - | The crystal structure of the DNA heptamer d(GCGCGCG) has been solved at 1.65 A resolution by the molecular replacement method and refined to an R-value of 0.184 for 3598 reflections. The heptamer forms a Z-DNA d(CGCGCG)2 with 5'-overhang G residues instead of an A-DNA d(GCGCGC)2 with 3'-overhang G residues. The overhang G residues from parallel strands of two adjacent duplexes form a trans reverse Hoogsteen G x G basepair that stacks on the six Z-DNA basepairs to produce a pseudocontinuous helix. The reverse Hoogsteen G x G basepair is unusual in that the displacement of one G base relative to the other allows them to participate in a bifurcated (G1)N2 . . . N7(G8) and an enhanced (G8)C8-H . . . O6(G1) hydrogen bond, in addition to the two usual hydrogen bonds. The 5'-overhang G residues are anti and C2'-endo while the 3'-terminal G residues are syn and C2'-endo. The conformations of both G residues are different from the syn/C3'-endo for the guanosine in a standard Z-DNA. The two cobalt hexammine ions bind to the phosphate groups in both GpC and CpG steps in Z(I) and Z(II) conformations. The water structure motif is similar to the other Z-DNA structures.
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| - | | + | |
| - | ==About this Structure==
| + | |
| - | 331D 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=331D OCA].
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| - | | + | |
| - | ==Reference==
| + | |
| - | Crystal structure of d(GCGCGCG) with 5'-overhang G residues., Pan B, Ban C, Wahl MC, Sundaralingam M, Biophys J. 1997 Sep;73(3):1553-61. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/9284322 9284322]
| + | |
| - | [[Category: Protein complex]] | + | |
| - | [[Category: Ban, C.]] | + | |
| - | [[Category: Pan, B.]] | + | |
| - | [[Category: Sundaralingam, M.]] | + | |
| - | [[Category: Wahl, M.]] | + | |
| - | [[Category: double helix]]
| + | |
| - | [[Category: flipped-out base]]
| + | |
| - | [[Category: overhanging base]]
| + | |
| - | [[Category: z-dna]]
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| - | | + | |
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 05:21:28 2008''
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