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- PDB-264d: THREE-DIMENSIONAL CRYSTAL STRUCTURE OF THE A-TRACT DNA DODECAMER ... -
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Open data
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Basic information
Entry | Database: PDB / ID: 264d | ||||||||||||||||||
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Title | THREE-DIMENSIONAL CRYSTAL STRUCTURE OF THE A-TRACT DNA DODECAMER D(CGCAAATTTGCG) COMPLEXED WITH THE MINOR-GROOVE-BINDING DRUG HOECHST 33258 | ||||||||||||||||||
![]() | DNA (5'-D(*![]() ![]() ![]() ![]() Function / homology | Chem-HT / | ![]() ![]() Method | ![]() ![]() Vega, M.C. / Garcia-Saez, I. / Aymami, J. / Eritja, R. / Van Der Marel, G.A. / Van Boom, J.H. / Rich, A. / Coll, M. | ![]() ![]() Title: Three-dimensional crystal structure of the A-tract DNA dodecamer d(CGCAAATTTGCG) complexed with the minor-groove-binding drug Hoechst 33258. Authors: Vega, M.C. / Garcia Saez, I. / Aymami, J. / Eritja, R. / Van der Marel, G.A. / Van Boom, J.H. / Rich, A. / Coll, M. #1: Journal: Biochemistry / Year: 1989 Title: Binding of a Hoechst dye to d(CGCGATATCGCG) and its influence on the conformation of the DNA fragment. Authors: Carrondo, M.A. / Coll, M. / Aymami, J. / Wang, A.H. / van der Marel, G.A. / van Boom, J.H. / Rich, A. #2: ![]() Title: A Bifurcated Hydrogen-Bonded Conformation in the d(A.T) Base Pairs of the DNA Dodecamer d(CGCAAATTTGCG) and Its Complex with Distamycin Authors: Coll, M. / Frederick, C.A. / Wang, A.H.-J. / Rich, A. History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 24.2 KB | Display | ![]() |
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PDB format | ![]() | 15.5 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components
#1: DNA chain | Mass: 3662.404 Da / Num. of mol.: 2 / Source method: obtained synthetically #2: Chemical | ChemComp-HT / | ![]() #3: Water | ChemComp-HOH / | ![]() |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.35 Å3/Da / Density % sol: 47.72 % | |||||||||||||||||||||||||||||||||||
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Crystal grow![]() | Method: vapor diffusion, sitting drop / pH: 7 / Details: pH 7.00, VAPOR DIFFUSION, SITTING DROP / Temp details: ROOM TEMPERATURE | |||||||||||||||||||||||||||||||||||
Components of the solutions |
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Crystal grow | *PLUS pH: 7 | |||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Ambient temp details: ROOM TEMPERATURE |
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Diffraction source | Source: ![]() |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE |
Radiation | Scattering type: x-ray |
Radiation wavelength | Relative weight: 1 |
Reflection | Highest resolution: 2.44 Å / Num. all: 9285 / Num. obs: 2291 / % possible obs: 82.5 % / Observed criterion σ(F): 2 |
Reflection | *PLUS Highest resolution: 2.4 Å / Lowest resolution: 5 Å / % possible obs: 82.5 % / Observed criterion σ(F): 2 / Num. measured all: 9285 / Rmerge(I) obs: 0.061 |
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Processing
Software | Name: ![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Refinement | Resolution: 2.44→10 Å / σ(F): 2
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Refine Biso |
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Refinement step | Cycle: LAST / Resolution: 2.44→10 Å
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Refine LS restraints |
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Refinement | *PLUS Highest resolution: 2.4 Å / Lowest resolution: 10 Å / σ(F): 2 / Rfactor Rwork![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS |