+Open data
-Basic information
Entry | Database: PDB / ID: 154d | ||||||||||||||||||
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Title | DNA DISTORTION IN BIS-INTERCALATED COMPLEXES | ||||||||||||||||||
Components | DNA (5'-D(*Keywords | DNA / RIGHT HANDED DNA / DOUBLE HELIX / COMPLEXED WITH DRUG / MODIFIED | Function / homology | Chem-FLD / DNA | Function and homology information Method | X-RAY DIFFRACTION / Resolution: 2.5 Å | Authors | Peek, M.E. / Lipscomb, L.A. / Bertrand, J.A. / Gao, Q. / Roques, B.P. / Garbay-Jaureguiberry, C. / Williams, L.D. | Citation | Journal: Biochemistry / Year: 1994 | Title: DNA distortion in bis-intercalated complexes. Authors: Peek, M.E. / Lipscomb, L.A. / Bertrand, J.A. / Gao, Q. / Roques, B.P. / Garbay-Jaureguiberry, C. / Williams, L.D. History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 154d.cif.gz | 16.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb154d.ent.gz | 10 KB | Display | PDB format |
PDBx/mmJSON format | 154d.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 154d_validation.pdf.gz | 396.7 KB | Display | wwPDB validaton report |
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Full document | 154d_full_validation.pdf.gz | 410.5 KB | Display | |
Data in XML | 154d_validation.xml.gz | 4.3 KB | Display | |
Data in CIF | 154d_validation.cif.gz | 5.1 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/54/154d ftp://data.pdbj.org/pub/pdb/validation_reports/54/154d | 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: 1270.714 Da / Num. of mol.: 2 / Source method: obtained synthetically #2: Chemical | ChemComp-FLD / | #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: 2.96 Å3/Da / Density % sol: 58.39 % | |||||||||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | Method: vapor diffusion, sitting drop / pH: 7 / Details: pH 7.00, VAPOR DIFFUSION, SITTING DROP / Temp details: ROOM TEMPERATURE | |||||||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions |
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Crystal grow | *PLUS pH: 7 | |||||||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 293 K |
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Diffraction source | Source: ROTATING ANODE / Type: RIGAKU RU200 |
Detector | Type: SDMS / Detector: AREA DETECTOR |
Radiation | Scattering type: x-ray |
Radiation wavelength | Relative weight: 1 |
Reflection | Highest resolution: 2.5 Å / Num. all: 2139 / Num. obs: 1183 / Observed criterion σ(F): 2 |
Reflection | *PLUS Highest resolution: 2.5 Å / % possible obs: 98 % / Observed criterion σ(F): 2 / Rmerge(I) obs: 0.0663 |
-Processing
Software |
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Refinement | Resolution: 2.5→7.1 Å / σ(F): 2 /
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Refine Biso |
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Refinement step | Cycle: LAST / Resolution: 2.5→7.1 Å
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Refine LS restraints |
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Refinement | *PLUS Highest resolution: 2.5 Å / Lowest resolution: 7.1 Å / σ(F): 2 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS |