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Yorodumi- PDB-113d: THE STRUCTURE OF GUANOSINE-THYMIDINE MISMATCHES IN B-DNA AT 2.5 A... -
+Open data
-Basic information
Entry | Database: PDB / ID: 113d | ||||||||||||||||||
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Title | THE STRUCTURE OF GUANOSINE-THYMIDINE MISMATCHES IN B-DNA AT 2.5 ANGSTROMS RESOLUTION | ||||||||||||||||||
Components | DNA (5'-D(*Keywords | DNA / B-DNA / DOUBLE HELIX / MISMATCHED | Function / homology | DNA / DNA (> 10) | Function and homology information Method | X-RAY DIFFRACTION / Resolution: 2.5 Å | Authors | Hunter, W.N. / Brown, T. / Kneale, G. / Anand, N.N. / Rabinovich, D. / Kennard, O. | Citation | Journal: J.Biol.Chem. / Year: 1987 | Title: The structure of guanosine-thymidine mismatches in B-DNA at 2.5-A resolution. Authors: Hunter, W.N. / Brown, T. / Kneale, G. / Anand, N.N. / Rabinovich, D. / Kennard, O. History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 113d.cif.gz | 21.2 KB | Display | PDBx/mmCIF format |
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PDB format | pdb113d.ent.gz | 13.4 KB | Display | PDB format |
PDBx/mmJSON format | 113d.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/13/113d ftp://data.pdbj.org/pub/pdb/validation_reports/13/113d | HTTPS FTP |
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-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: DNA chain | Mass: 3678.403 Da / Num. of mol.: 2 / Source method: obtained synthetically #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 2.35 Å3/Da / Density % sol: 47.59 % | ||||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 281 K / Method: vapor diffusion, sitting drop / pH: 7.4 Details: pH 7.40, VAPOR DIFFUSION, SITTING DROP, temperature 281.00K | ||||||||||||||||||||||||||||||||
Components of the solutions |
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-Data collection
Diffraction | Mean temperature: 279 K |
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Detector | Type: SYNTEX P21 / Detector: DIFFRACTOMETER |
Radiation | Scattering type: x-ray |
Radiation wavelength | Relative weight: 1 |
Reflection | Resolution: 2.5→8 Å / Num. obs: 2497 / Observed criterion σ(I): 0 |
Reflection | *PLUS Highest resolution: 2.5 Å / Lowest resolution: 8 Å / % possible obs: 60 % |
-Processing
Software | Name: NUCLSQ / Classification: refinement | ||||||||||||
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Refinement | Resolution: 2.5→8 Å / σ(I): 1 /
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Refine Biso |
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Refinement step | Cycle: LAST / Resolution: 2.5→8 Å
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Refinement | *PLUS Highest resolution: 2.5 Å / Lowest resolution: 8 Å / Num. reflection obs: 2004 / Rfactor obs: 0.18 / σ(I): 1 | ||||||||||||
Solvent computation | *PLUS | ||||||||||||
Displacement parameters | *PLUS |