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Yorodumi- PDB-1d32: DRUG-INDUCED DNA REPAIR: X-RAY STRUCTURE OF A DNA-DITERCALINIUM C... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1d32 | ||||||||||||||||||
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Title | DRUG-INDUCED DNA REPAIR: X-RAY STRUCTURE OF A DNA-DITERCALINIUM COMPLEX | ||||||||||||||||||
Components | DNA (5'-D(*Keywords | DNA / RIGHT HANDED DNA / DOUBLE HELIX / COMPLEXED WITH DRUG | Function / homology | DITERCALINIUM / DNA | Function and homology information Method | X-RAY DIFFRACTION / Resolution: 1.7 Å | Authors | Gao, Q. / Williams, L.D. / Egli, M. / Rabinovich, D. / Chen, S.-L. / Quigley, G.J. / Rich, A. | Citation | Journal: Proc.Natl.Acad.Sci.USA / Year: 1991 Title: Drug-induced DNA repair: X-ray structure of a DNA-ditercalinium complex. Authors: Gao, Q. / Williams, L.D. / Egli, M. / Rabinovich, D. / Chen, S.L. / Quigley, G.J. / Rich, A. #1: Journal: Biochemistry / Year: 1992 Title: DNA-Ditercalinium Interactions: Implications for Recognition of Damaged DNA Authors: Williams, L.D. / Gao, Q. History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1d32.cif.gz | 17.6 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1d32.ent.gz | 10.9 KB | Display | PDB format |
PDBx/mmJSON format | 1d32.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1d32_validation.pdf.gz | 405.4 KB | Display | wwPDB validaton report |
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Full document | 1d32_full_validation.pdf.gz | 420.6 KB | Display | |
Data in XML | 1d32_validation.xml.gz | 4.3 KB | Display | |
Data in CIF | 1d32_validation.cif.gz | 5.4 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/d3/1d32 ftp://data.pdbj.org/pub/pdb/validation_reports/d3/1d32 | HTTPS FTP |
-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: 1191.818 Da / Num. of mol.: 2 / Source method: obtained synthetically #2: Chemical | ChemComp-DIT / | #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 3.13 Å3/Da / Density % sol: 60.7 % | |||||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | Method: vapor diffusion, sitting drop / pH: 6 / Details: pH 6.00, VAPOR DIFFUSION, SITTING DROP / Temp details: ROOM TEMPERATURE | |||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions |
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Crystal grow | *PLUS pH: 6 / Method: vapor diffusion, sitting drop | |||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 273 K |
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Diffraction source | Source: ROTATING ANODE / Type: RIGAKU RU200 |
Detector | Type: RIGAKU AFC-5 / Detector: DIFFRACTOMETER |
Radiation | Scattering type: x-ray |
Radiation wavelength | Relative weight: 1 |
Reflection | Highest resolution: 1.7 Å / Num. obs: 2211 / Observed criterion σ(F): 3 |
Reflection | *PLUS Highest resolution: 1.7 Å / Lowest resolution: 2 Å / Observed criterion σ(F): 3 |
-Processing
Software | Name: NUCLSQ / Classification: refinement | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Refinement | Resolution: 1.7→2 Å / σ(F): 3 /
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Refine Biso |
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Refinement step | Cycle: LAST / Resolution: 1.7→2 Å
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Refine LS restraints |
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Refinement | *PLUS Highest resolution: 1.7 Å / Rfactor obs: 0.224 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS |