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Yorodumi- PDB-1d81: THE CONFORMATIONAL VARIABILITY OF AN ADENOSINE. INOSINE BASE-PAIR... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1d81 | ||||||||||||||||||
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Title | THE CONFORMATIONAL VARIABILITY OF AN ADENOSINE. INOSINE BASE-PAIR IN A SYNTHETIC DNA DODECAMER | ||||||||||||||||||
Components | DNA (5'-D(*Keywords | DNA / B-DNA / DOUBLE HELIX / MODIFIED / MISMATCHED | Function / homology | DNA / DNA (> 10) | Function and homology information Method | X-RAY DIFFRACTION / Resolution: 2.5 Å | Authors | Leonard, G.A. / Booth, E.D. / Hunter, W.N. / Brown, T. | Citation | Journal: Nucleic Acids Res. / Year: 1992 | Title: The conformational variability of an adenosine.inosine base-pair in a synthetic DNA dodecamer. Authors: Leonard, G.A. / Booth, E.D. / Hunter, W.N. / Brown, T. History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1d81.cif.gz | 24.1 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1d81.ent.gz | 15.1 KB | Display | PDB format |
PDBx/mmJSON format | 1d81.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/d8/1d81 ftp://data.pdbj.org/pub/pdb/validation_reports/d8/1d81 | 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: 3672.403 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: 2.3 Å3/Da / Density % sol: 46.56 % | ||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 277 K / Method: vapor diffusion, sitting drop / pH: 6.5 Details: pH 6.50, VAPOR DIFFUSION, SITTING DROP, temperature 277.00K | ||||||||||||||||||||||||||||||||||||||||||
Components of the solutions |
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Crystal grow | *PLUS Temperature: 4 ℃ / pH: 6.5 / Method: vapor diffusion, sitting drop | ||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 277 K |
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Detector | Type: SIEMENS AED2 / Detector: DIFFRACTOMETER |
Radiation | Scattering type: x-ray |
Radiation wavelength | Relative weight: 1 |
Reflection | Highest resolution: 2.5 Å / Num. all: 4866 / Num. obs: 2462 / Observed criterion σ(F): 1 / Rmerge(I) obs: 0.09 |
Reflection | *PLUS Num. all: 10292 / Observed criterion σ(F): 1 / Rmerge(I) obs: 0.09 |
-Processing
Software | Name: NUCLSQ / Classification: refinement | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Refinement | Resolution: 2.5→7 Å / σ(F): 2 /
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Refine Biso |
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Refinement step | Cycle: LAST / Resolution: 2.5→7 Å
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Refine LS restraints |
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Refinement | *PLUS Highest resolution: 2.5 Å / Lowest resolution: 7 Å / σ(F): 2 / Rfactor obs: 0.158 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS |