|
|
| (13 intermediate revisions by the same user not shown) |
| Line 1: |
Line 1: |
| [[Image:137d.gif|left|200px]]<br /><applet load="137d" size="350" color="white" frame="true" align="right" spinBox="true"
| |
| caption="137d, resolution 1.700Å" />
| |
| '''A-DNA DECAMER D(GCGGGCCCGC)-ORTHORHOMBIC CRYSTAL FORM'''<br />
| |
|
| |
|
| ==Overview== | | ==A-DNA DECAMER D(GCGGGCCCGC)-ORTHORHOMBIC CRYSTAL FORM== |
| We have determined the structure of the A-DNA decamer d(GCGGGCCCGC) in two crystal forms, orthorhombic and hexagonal, at 1.7- and 1.8-A resolution, respectively. In the orthorhombic form, the fifth guanine residue has nearly trans-trans conformations for the alpha-gamma backbone torsions, as in the isomorphous orthorhombic structure d(CCCGGCCGGG) [Ramakrishnan, B., & Sundaralingam, M. (1993) J. Mol. Biol. 231, 431-444]. However, in the hexagonal form, the eighth cytosine residue adopts the trans-trans conformations for the backbone alpha-gamma torsions, as in the isomorphous hexagonal structure d(ACCGGCCGGT) [Frederick, C. A., Quigley, G. J., Teng, M.-K., Coll, M., van der Marel, G. A., van Boom, J. H., Rich, A., & Wang, A. H.-J. (1989) Eur. J. Biochem. 181, 295-307]. Even though the average helix and base-pair parameters are nearly the same in the two polymorphous crystal forms having the same sequence, many of the base-dependent local helix parameters are quite different. However, in the isomorphous crystal forms, in spite of the differing base sequences, the local helix and base-pair parameters of the duplexes are nearly the same. This indicates that, in crystals, the local conformation of a DNA structure is affected severely by the crystal packing environment rather than by the base sequence.
| | <StructureSection load='137d' size='340' side='right'caption='[[137d]], [[Resolution|resolution]] 1.70Å' scene=''> |
| | | == Structural highlights == |
| ==About this Structure== | | <table><tr><td colspan='2'>[[137d]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=137D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=137D FirstGlance]. <br> |
| 137D is a [http://en.wikipedia.org/wiki/Protein_complex 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=137D 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]] 1.7Å</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=137d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=137d OCA], [https://pdbe.org/137d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=137d RCSB], [https://www.ebi.ac.uk/pdbsum/137d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=137d ProSAT]</span></td></tr> |
| ==Reference== | | </table> |
| Evidence for crystal environment dominating base sequence effects on DNA conformation: crystal structures of the orthorhombic and hexagonal polymorphs of the A-DNA decamer d(GCGGGCCCGC) and comparison with their isomorphous crystal structures., Ramakrishnan B, Sundaralingam M, Biochemistry. 1993 Oct 26;32(42):11458-68. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=8218212 8218212]
| | __TOC__ |
| [[Category: Protein complex]] | | </StructureSection> |
| [[Category: Ramakrishnan, B.]] | | [[Category: Large Structures]] |
| [[Category: Sundaralingam, M.]] | | [[Category: Ramakrishnan B]] |
| [[Category: a-dna]] | | [[Category: Sundaralingam M]] |
| [[Category: double helix]] | |
| | |
| ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 11:38:06 2008''
| |