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Yorodumi- PDB-1vtv: Molecular structure of (M5DC-DG)3: The role of the methyl group o... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1vtv | ||||||||||||||||||
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Title | Molecular structure of (M5DC-DG)3: The role of the methyl group on 5-methyl cytosine in stabilizing Z-DNA | ||||||||||||||||||
Components | DNA (5'-D(*Keywords | DNA / Z-DNA / DOUBLE HELIX / MODIFIED | Function / homology | DNA | Function and homology information Method | X-RAY DIFFRACTION / Resolution: 1.3 Å | Authors | Fujii, S. / Wang, A.H.-J. / Van Der Marel, G.A. / Van Boom, J.H. / Rich, A. | Citation | Journal: Nucleic Acids Res. / Year: 1982 | Title: Molecular Structure of (m5dC-dG)3: The Role of the Methyl Group on 5-Methyl Cytosine in Stabilizing Z-DNA Authors: Fujii, S. / Wang, A.H.-J. / Van Der Marel, G.A. / Van Boom, J.H. / Rich, A. History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1vtv.cif.gz | 13.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1vtv.ent.gz | 9.2 KB | Display | PDB format |
PDBx/mmJSON format | 1vtv.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1vtv_validation.pdf.gz | 328.5 KB | Display | wwPDB validaton report |
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Full document | 1vtv_full_validation.pdf.gz | 343.1 KB | Display | |
Data in XML | 1vtv_validation.xml.gz | 3.3 KB | Display | |
Data in CIF | 1vtv_validation.cif.gz | 3.9 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/vt/1vtv ftp://data.pdbj.org/pub/pdb/validation_reports/vt/1vtv | 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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Atom site foot note | 1: THESE PHOSPHATES ARE DISORDERED. |
-Components
#1: DNA chain | Mass: 1852.286 Da / Num. of mol.: 2 / Source method: obtained synthetically |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 1.66 Å3/Da / Density % sol: 26.09 % | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | Method: vapor diffusion, sitting drop / Details: VAPOR DIFFUSION, SITTING DROP / Temp details: ROOM TEMPERATURE | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions |
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-Data collection
Diffraction | Mean temperature: 265 K |
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Detector | Type: NICOLET P3 / Detector: DIFFRACTOMETER |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Relative weight: 1 |
Reflection | Highest resolution: 1.3 Å / Num. obs: 4208 / Observed criterion σ(I): 1.5 |
-Processing
Software | Name: NUCLSQ / Classification: refinement | ||||||||||||
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Refinement | Highest resolution: 1.3 Å / σ(I): 1.5 /
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Refine Biso |
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Refinement step | Cycle: LAST / Highest resolution: 1.3 Å
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