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- PDB-4ocb: Z-DNA dodecamer d(CGCGCGCGCGCG)2 at 0.75 A resolution solved by P-SAD -
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Open data
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Basic information
Entry | Database: PDB / ID: 4ocb | ||||||
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Title | Z-DNA dodecamer d(CGCGCGCGCGCG)2 at 0.75 A resolution solved by P-SAD | ||||||
![]() | d(CGCGCGCGCGCG)2 duplex | ||||||
![]() | DNA / Z-DNA dodecamer duplex | ||||||
Function / homology | DNA / DNA (> 10)![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Luo, Z. / Dauter, M. / Dauter, Z. | ||||||
![]() | ![]() Title: Phosphates in the Z-DNA dodecamer are flexible, but their P-SAD signal is sufficient for structure solution Authors: Luo, Z. / Dauter, M. / Dauter, Z. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 25.8 KB | Display | ![]() |
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PDB format | ![]() | 18.2 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 372.3 KB | Display | ![]() |
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Full document | ![]() | 372.3 KB | Display | |
Data in XML | ![]() | 3.6 KB | Display | |
Data in CIF | ![]() | 4.8 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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1 | ![]()
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Unit cell |
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Components
#1: DNA chain | Mass: 3665.368 Da / Num. of mol.: 1 / Source method: obtained synthetically |
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#2: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 1.81 Å3/Da / Density % sol: 31.98 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 7 Details: 2:1 mixture of 1.66 mM DNA solution with the following solution: 40mM Na cacodylate pH 7.0, 12 mM spermine tetrachloride, 80 mM NaCl, 10% (v/v) MPD. The well solution contained 35% MPD., ...Details: 2:1 mixture of 1.66 mM DNA solution with the following solution: 40mM Na cacodylate pH 7.0, 12 mM spermine tetrachloride, 80 mM NaCl, 10% (v/v) MPD. The well solution contained 35% MPD., VAPOR DIFFUSION, HANGING DROP, temperature 293K |
-Data collection
Diffraction source | Source: ![]() ![]() ![]() |
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Detector | Type: DECTRIS PILATUS 6M-F / Detector: PIXEL / Date: Mar 28, 2013 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.6199 Å / Relative weight: 1 |
Reflection | Resolution: 0.75→30 Å / Num. all: 32210 / Num. obs: 32210 / % possible obs: 95.1 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 13.5 % / Biso Wilson estimate: 6.9 Å2 / Rmerge(I) obs: 0.031 / Net I/σ(I): 84.7 |
Reflection shell | Resolution: 0.75→0.76 Å / Redundancy: 7.6 % / Rmerge(I) obs: 0.734 / Mean I/σ(I) obs: 2.8 / Num. unique all: 1525 / Rsym value: 0.734 / % possible all: 92.2 |
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Processing
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Refinement | Method to determine structure: ![]()
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Refinement step | Cycle: LAST / Resolution: 0.75→30 Å
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Refine LS restraints |
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