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Yorodumi- PDB-1dn4: SOLVATION OF THE LEFT-HANDED HEXAMER D(5BRC-G-5BRC-G-5BRC-G) IN C... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1dn4 | ||||||||||||||||||
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Title | SOLVATION OF THE LEFT-HANDED HEXAMER D(5BRC-G-5BRC-G-5BRC-G) IN CRYSTALS GROWN AT TWO TEMPERATURES | ||||||||||||||||||
Components | DNA (5'-D(*Keywords | DNA / Z-DNA / DOUBLE HELIX / MODIFIED | Function / homology | DNA | Function and homology information Method | X-RAY DIFFRACTION / Resolution: 1.6 Å | Authors | Chevrier, B. / Dock, A.C. / Hartmann, B. / Leng, M. / Moras, D. / Thuong, M.T. / Westhof, E. | Citation | Journal: J.Mol.Biol. / Year: 1986 | Title: Solvation of the left-handed hexamer d(5BrC-G-5BrC-G-5 BrC-G) in crystals grown at two temperatures. Authors: Chevrier, B. / Dock, A.C. / Hartmann, B. / Leng, M. / Moras, D. / Thuong, M.T. / Westhof, E. History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1dn4.cif.gz | 16.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1dn4.ent.gz | 11.3 KB | Display | PDB format |
PDBx/mmJSON format | 1dn4.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1dn4_validation.pdf.gz | 352.6 KB | Display | wwPDB validaton report |
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Full document | 1dn4_full_validation.pdf.gz | 368.6 KB | Display | |
Data in XML | 1dn4_validation.xml.gz | 4.7 KB | Display | |
Data in CIF | 1dn4_validation.cif.gz | 5.5 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/dn/1dn4 ftp://data.pdbj.org/pub/pdb/validation_reports/dn/1dn4 | HTTPS FTP |
-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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Atom site foot note | 2: ATOM HOH 1 IS PROBABLY A SODIUM ION. |
-Components
#1: DNA chain | Mass: 2046.893 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 grow | Temperature: 291 K / Method: vapor diffusion / Details: VAPOR DIFFUSION, temperature 291.00K | ||||||||||||||||||||||||||||||||||||||||||
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Components of the solutions |
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Crystal grow | *PLUS Temperature: 18 ℃ / pH: 6.5 | ||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 291 K |
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Detector | Type: ENRAF-NONIUS CAD4 / Detector: DIFFRACTOMETER |
Radiation | Scattering type: x-ray |
Radiation wavelength | Relative weight: 1 |
Reflection | Resolution: 1.6→10 Å / Num. all: 3195 / Num. obs: 2919 / Observed criterion σ(F): 3 |
Reflection | *PLUS Highest resolution: 1.4 Å / Lowest resolution: 10 Å / Observed criterion σ(F): 2 |
-Processing
Software | Name: NUCLSQ / Classification: refinement | ||||||||||||
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Refinement | Resolution: 1.6→10 Å / Occupancy max: 1 / Occupancy min: 0.44 / σ(F): 3 /
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Refine Biso |
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Refinement step | Cycle: LAST / Resolution: 1.6→10 Å
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Software | *PLUS Name: PROLSQ / Classification: refinement | ||||||||||||
Refinement | *PLUS Highest resolution: 1.4 Å / Lowest resolution: 10 Å / σ(F): 3 | ||||||||||||
Solvent computation | *PLUS | ||||||||||||
Displacement parameters | *PLUS | ||||||||||||
Refine LS restraints | *PLUS
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