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- PDB-4dnb: METHYLATION OF THE ECORI RECOGNITION SITE DOES NOT ALTER DNA CONF... -
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Open data
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Basic information
Entry | Database: PDB / ID: 4dnb | ||||||||||||||||||
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Title | METHYLATION OF THE ECORI RECOGNITION SITE DOES NOT ALTER DNA CONFORMATION. THE CRYSTAL STRUCTURE OF D(CGCGAM6ATTCGCG) AT 2.0 ANGSTROMS RESOLUTION | ||||||||||||||||||
![]() | DNA (5'-D(*![]() DNA / B-DNA / DOUBLE HELIX / MODIFIED | Function / homology | DNA / DNA (> 10) | ![]() Method | ![]() ![]() Frederick, C.A. / Quigley, G.J. / Van Der Marel, G.A. / Van Boom, J.H. / Wang, A.H.-J. / Rich, A. | ![]() ![]() Title: Methylation of the EcoRI recognition site does not alter DNA conformation: the crystal structure of d(CGCGAm6ATTCGCG) at 2.0-A resolution. Authors: Frederick, C.A. / Quigley, G.J. / van der Marel, G.A. / van Boom, J.H. / Wang, A.H. / 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 | ![]() | 28.4 KB | Display | ![]() |
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PDB format | ![]() | 16.3 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 332.8 KB | Display | ![]() |
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Full document | ![]() | 368.6 KB | Display | |
Data in XML | ![]() | 6.5 KB | Display | |
Data in CIF | ![]() | 8.4 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-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: 3677.418 Da / Num. of mol.: 2 / Source method: obtained synthetically #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.37 Å3/Da / Density % sol: 48.06 % | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | Method: vapor diffusion / Details: VAPOR DIFFUSION | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions |
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Crystal grow | *PLUS pH: 7 / Method: vapor diffusion | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 288 K |
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Detector | Type: NICOLET / Detector: DIFFRACTOMETER |
Radiation | Scattering type: x-ray |
Radiation wavelength | Relative weight: 1 |
Reflection | Highest resolution: 2 Å / Num. obs: 2379 / Observed criterion σ(F): 2 |
Reflection | *PLUS % possible obs: 55 % |
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Processing
Software | Name: NUCLSQ / Classification: refinement | ||||||||||||
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Refinement | Highest resolution: 2 Å / σ(F): 2 /
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Refine Biso |
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Refinement step | Cycle: LAST / Highest resolution: 2 Å
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Refinement | *PLUS Highest resolution: 2 Å / Rfactor obs: 0.169 | ||||||||||||
Solvent computation | *PLUS | ||||||||||||
Displacement parameters | *PLUS |