|
|
| (11 intermediate revisions not shown.) |
| Line 1: |
Line 1: |
| - | [[Image:1s9b.gif|left|200px]] | |
| | | | |
| - | {{Structure
| + | ==Crystal Structure Analysis of the B-DNA GAATTCG== |
| - | |PDB= 1s9b |SIZE=350|CAPTION= <scene name='initialview01'>1s9b</scene>, resolution 2.81Å
| + | <StructureSection load='1s9b' size='340' side='right'caption='[[1s9b]], [[Resolution|resolution]] 2.81Å' 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=DT:THYMIDINE-5'-MONOPHOSPHATE'>DT</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>
| + | <table><tr><td colspan='2'>[[1s9b]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1S9B OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1S9B 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]] 2.81Å</td></tr> |
| - | |GENE=
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</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=1s9b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s9b OCA], [https://pdbe.org/1s9b PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1s9b RCSB], [https://www.ebi.ac.uk/pdbsum/1s9b PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1s9b ProSAT]</span></td></tr> |
| - | |RELATEDENTRY=
| + | </table> |
| - | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1s9b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s9b OCA], [http://www.ebi.ac.uk/pdbsum/1s9b PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1s9b RCSB]</span>
| + | __TOC__ |
| - | }}
| + | </StructureSection> |
| - | | + | [[Category: Large Structures]] |
| - | '''Crystal Structure Analysis of the B-DNA GAATTCG'''
| + | [[Category: Gouyette C]] |
| - | | + | [[Category: Subirana JA]] |
| - | | + | [[Category: Uson I]] |
| - | ==Overview==
| + | [[Category: Valls N]] |
| - | DNA oligonucleotides can be used in order to assemble highly structured materials. Oligonucleotides with sticky ends can form long linear structures, whereas branching is required to form two- and three-dimensional nanostructures. In this paper, we show that when Ni(2+) is attached to the N7 atom of guanine, it can also act as a branching point. Thus, we have found that the heptanucleotide d(GAATTCG) can assemble into long linear duplex structures, which cross in space to generate a cubic structure. The three-dimensional arrays are stabilized by phosphate-Ni(2+)-guanine interactions. For the first time, the crystallization of a B form DNA oligonucleotide in a cubic system is reported, space group I23. Large solvent cavities are found among the DNA duplexes.
| + | |
| - | | + | |
| - | ==About this Structure==
| + | |
| - | 1S9B 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=1S9B OCA].
| + | |
| - | | + | |
| - | ==Reference==
| + | |
| - | A cubic arrangement of DNA double helices based on nickel-guanine interactions., Valls N, Uson I, Gouyette C, Subirana JA, J Am Chem Soc. 2004 Jun 30;126(25):7812-6. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15212528 15212528]
| + | |
| - | [[Category: Protein complex]] | + | |
| - | [[Category: Gouyette, C.]] | + | |
| - | [[Category: Subirana, J A.]] | + | |
| - | [[Category: Uson, I.]] | + | |
| - | [[Category: Valls, N.]] | + | |
| - | [[Category: cubic dna]]
| + | |
| - | [[Category: double helix]]
| + | |
| - | [[Category: nickel]]
| + | |
| - | | + | |
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 23:39:01 2008''
| + | |
