|
|
| (10 intermediate revisions not shown.) |
| Line 1: |
Line 1: |
| - | [[Image:1jrn.gif|left|200px]] | |
| | | | |
| - | <!--
| + | ==Orthorhombic form of Oxytricha telomeric DNA at 2.0A== |
| - | The line below this paragraph, containing "STRUCTURE_1jrn", creates the "Structure Box" on the page.
| + | <StructureSection load='1jrn' size='340' side='right'caption='[[1jrn]], [[Resolution|resolution]] 2.00Å' 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'>[[1jrn]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JRN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1JRN 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]] 2Å</td></tr> |
| - | -->
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=K:POTASSIUM+ION'>K</scene></td></tr> |
| - | {{STRUCTURE_1jrn| PDB=1jrn | SCENE= }}
| + | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1jrn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1jrn OCA], [https://pdbe.org/1jrn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1jrn RCSB], [https://www.ebi.ac.uk/pdbsum/1jrn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1jrn ProSAT]</span></td></tr> |
| - | | + | </table> |
| - | '''Orthorhombic form of Oxytricha telomeric DNA at 2.0A'''
| + | __TOC__ |
| - | | + | </StructureSection> |
| - | | + | [[Category: Large Structures]] |
| - | ==Overview== | + | [[Category: Haider SM]] |
| - | The crystal structures of the potassium-containing quadruplex formed from the Oxytricha nova sequence d(GGGGTTTTGGGG) are reported, in two space groups, the orthorhombic P2(1)2(1)2(1) and the trigonal P3(2)21, which diffract to 2.0 A and 1.49 A, respectively. The orthorhombic form contains two independent quadruplexes in the asymmetric unit, and the trigonal form contains one. All three of these quadruplexes adopt an identical fold, with two strands forming an antiparallel diagonal arrangement. This is identical with that observed previously in NMR studies of the native sodium and potassium forms, and a crystallographic analysis of it complexed with an O. nova protein. The present analysis demonstrates that the native structure is the same in solution and in the crystalline state and, moreover, that the nature of the counter-ion does not affect the overall fold of this quadruplex. The analysis corrects an earlier crystallographic study of this quadruplex. The conformation of the tetra-thymine loop is described in detail, which involves the third thymine base folding back to interact with the first thymine base. The water networks in the grooves and loops are described and, in particular, the ability of water molecules to form a continuous spine of hydration in the narrow groove is detailed. Each quadruplex has five potassium ions organised in a linear channel, with square antiprismatic coordination to each ion from oxygen atoms.
| + | [[Category: Neidle S]] |
| - | | + | [[Category: Parkinson G]] |
| - | ==About this Structure== | + | |
| - | Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JRN OCA]. | + | |
| - | | + | |
| - | ==Reference== | + | |
| - | Crystal structure of the potassium form of an Oxytricha nova G-quadruplex., Haider S, Parkinson GN, Neidle S, J Mol Biol. 2002 Jul 5;320(2):189-200. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/12079378 12079378]
| + | |
| - | [[Category: Haider, S M.]] | + | |
| - | [[Category: Neidle, S.]] | + | |
| - | [[Category: Parkinson, G.]] | + | |
| - | [[Category: G-quartet]] | + | |
| - | [[Category: Oxytricha]] | + | |
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May 2 21:45:53 2008''
| + | |
