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Yorodumi- PDB-2d94: THE CONFORMATION OF THE DNA DOUBLE HELIX IN THE CRYSTAL IS DEPEND... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2d94 | ||||||||||||||||||
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Title | THE CONFORMATION OF THE DNA DOUBLE HELIX IN THE CRYSTAL IS DEPENDENT ON ITS ENVIRONMENT | ||||||||||||||||||
Components | DNA (5'-D(*Keywords | DNA / A-DNA / DOUBLE HELIX | Function / homology | DNA | Function and homology information Method | X-RAY DIFFRACTION / Resolution: 1.7 Å | Authors | Shakked, Z. / Guerstein-Guzikevich, G. / Eisenstein, M. / Frolow, F. / Rabinovich, D. | Citation | Journal: Nature / Year: 1989 Title: The conformation of the DNA double helix in the crystal is dependent on its environment. Authors: Shakked, Z. / Guerstein-Guzikevich, G. / Eisenstein, M. / Frolow, F. / Rabinovich, D. #1: Journal: J.Mol.Biol. / Year: 1988 Title: Structures of the Mismatched Duplex d(GGGTGCCC) and One of Its Watson-Crick Analogues d(GGGCGCCC) Authors: Rabinovich, D. / Haran, T. / Eisenstein, M. / Shakked, Z. History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2d94.cif.gz | 13.9 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2d94.ent.gz | 8.8 KB | Display | PDB format |
PDBx/mmJSON format | 2d94.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 2d94_validation.pdf.gz | 311.8 KB | Display | wwPDB validaton report |
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Full document | 2d94_full_validation.pdf.gz | 315.4 KB | Display | |
Data in XML | 2d94_validation.xml.gz | 1.7 KB | Display | |
Data in CIF | 2d94_validation.cif.gz | 2.6 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/d9/2d94 ftp://data.pdbj.org/pub/pdb/validation_reports/d9/2d94 | HTTPS FTP |
-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: DNA chain | Mass: 2428.593 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source |
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#2: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 2.38 Å3/Da / Density % sol: 48.27 % | ||||||||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 292 K / Method: vapor diffusion / pH: 7 / Details: pH 7.00, VAPOR DIFFUSION, temperature 292.00K | ||||||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions |
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Crystal grow | *PLUS Method: unknown / pH: 6.5 | ||||||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Ambient temp details: ROOM TEMPERATURE |
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Detector | Type: NONIUS CAD4 / Detector: CCD |
Radiation | Scattering type: x-ray |
Radiation wavelength | Relative weight: 1 |
Reflection | Highest resolution: 1.7 Å / Num. obs: 2027 / Observed criterion σ(F): 2 |
-Processing
Software | Name: NUCLSQ / Classification: refinement | ||||||||||||
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Refinement | Highest resolution: 1.7 Å / σ(F): 2 /
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Refine Biso |
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Refinement step | Cycle: LAST / Highest resolution: 1.7 Å
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Refinement | *PLUS Highest resolution: 1.7 Å / Num. reflection obs: 2027 / σ(F): 2 / Rfactor obs: 0.162 | ||||||||||||
Solvent computation | *PLUS | ||||||||||||
Displacement parameters | *PLUS |