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| - | [[Image:4bna.gif|left|200px]] | |
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| - | {{Structure
| + | ==REVERSIBLE BENDING AND HELIX GEOMETRY IN A B-DNA DODECAMER: CGCGAATTBRCGCG== |
| - | |PDB= 4bna |SIZE=350|CAPTION= <scene name='initialview01'>4bna</scene>, resolution 2.300Å
| + | <StructureSection load='4bna' size='340' side='right'caption='[[4bna]], [[Resolution|resolution]] 2.30Å' scene=''> |
| - | |SITE=
| + | == Structural highlights == |
| - | |LIGAND= <scene name='pdbligand=CBR:5-BROMO-2'-DEOXY-CYTIDINE-5'-MONOPHOSPHATE'>CBR</scene>, <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>
| + | <table><tr><td colspan='2'>[[4bna]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4BNA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4BNA 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]] 2.3Å</td></tr> |
| - | |GENE=
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CBR:5-BROMO-2-DEOXY-CYTIDINE-5-MONOPHOSPHATE'>CBR</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=4bna FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4bna OCA], [https://pdbe.org/4bna PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4bna RCSB], [https://www.ebi.ac.uk/pdbsum/4bna PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4bna ProSAT]</span></td></tr> |
| - | |RELATEDENTRY=
| + | </table> |
| - | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4bna FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4bna OCA], [http://www.ebi.ac.uk/pdbsum/4bna PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=4bna RCSB]</span>
| + | __TOC__ |
| - | }}
| + | </StructureSection> |
| - | | + | [[Category: Large Structures]] |
| - | '''REVERSIBLE BENDING AND HELIX GEOMETRY IN A B-DNA DODECAMER: CGCGAATTBRCGCG'''
| + | [[Category: Dickerson RE]] |
| - | | + | [[Category: Fratini AV]] |
| - | | + | [[Category: Kopka ML]] |
| - | ==Overview==
| + | |
| - | A double-helical B-DNA dodecamer has been analyzed by single crystal x-ray diffraction methods and refined independently in four variants: sequence CGCGAATTCGCG at 20 degrees C and at 16 K, and CGCGAATTBrCGCG in 60% methylpentanediol at 20 and at 7 degrees C. The first three forms show a 14-19 degrees bend in overall helix axis, but the fourth is straight and unbent. Detailed comparisons of the various forms have led to a better understanding of helix geometry and bending. Structural principles can be understood best if organized under four headings: 1) intrinsic geometry of the sugar rings, 2) stacking and relative motion of base pairs, 3) geometry of the connecting phosphate backbone, and 4) mechanics of bending in B-DNA. The observed bending is neither completely localized nor smooth and continuous, but an intermediate compromise that can be termed "annealed kinking."
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| - | | + | |
| - | ==About this Structure==
| + | |
| - | 4BNA 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=4BNA OCA].
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| - | | + | |
| - | ==Reference==
| + | |
| - | Reversible bending and helix geometry in a B-DNA dodecamer: CGCGAATTBrCGCG., Fratini AV, Kopka ML, Drew HR, Dickerson RE, J Biol Chem. 1982 Dec 25;257(24):14686-707. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/7174662 7174662]
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| - | [[Category: Protein complex]] | + | |
| - | [[Category: Dickerson, R E.]] | + | |
| - | [[Category: Fratini, A V.]] | + | |
| - | [[Category: Kopka, M L.]] | + | |
| - | [[Category: b-dna]]
| + | |
| - | [[Category: double helix]]
| + | |
| - | [[Category: modified]]
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| - | | + | |
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 05:38:05 2008''
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