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Yorodumi- PDB-1d93: STRUCTURAL VARIATION IN D(CTCTAGAG). IMPLICATIONS FOR PROTEIN-DNA... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1d93 | ||||||||||||||||||
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Title | STRUCTURAL VARIATION IN D(CTCTAGAG). IMPLICATIONS FOR PROTEIN-DNA INTERACTIONS | ||||||||||||||||||
Components | DNA (5'-D(*Keywords | DNA / A-DNA / DOUBLE HELIX | Function / homology | DNA | Function and homology information Method | X-RAY DIFFRACTION / Resolution: 2.15 Å | Authors | Hunter, W.N. / Langlois D'Estaintot, B. / Kennard, O. | Citation | Journal: Biochemistry / Year: 1989 | Title: Structural variation in d(CTCTAGAG). Implications for protein-DNA interactions. Authors: Hunter, W.N. / D'Estaintot, B.L. / Kennard, O. History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1d93.cif.gz | 13.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1d93.ent.gz | 7.5 KB | Display | PDB format |
PDBx/mmJSON format | 1d93.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1d93_validation.pdf.gz | 314 KB | Display | wwPDB validaton report |
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Full document | 1d93_full_validation.pdf.gz | 323.9 KB | Display | |
Data in XML | 1d93_validation.xml.gz | 2.9 KB | Display | |
Data in CIF | 1d93_validation.cif.gz | 3.6 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/d9/1d93 ftp://data.pdbj.org/pub/pdb/validation_reports/d9/1d93 | 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: 2426.617 Da / Num. of mol.: 1 / Source method: obtained synthetically |
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#2: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 2.27 Å3/Da / Density % sol: 45.72 % | ||||||||||||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 291 K / Method: vapor diffusion, sitting drop / pH: 6.8 Details: pH 6.80, VAPOR DIFFUSION, SITTING DROP, temperature 291.00K | ||||||||||||||||||||||||||||||||||||||||
Components of the solutions |
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Crystal grow | *PLUS Temperature: 18 ℃ / pH: 6.8 / Method: vapor diffusion, sitting drop | ||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Detector | Type: SYNTEX P21 / Detector: DIFFRACTOMETER |
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Radiation | Scattering type: x-ray |
Radiation wavelength | Relative weight: 1 |
Reflection | Highest resolution: 2.15 Å / Num. all: 2320 / Num. obs: 1378 |
Reflection | *PLUS Highest resolution: 2.15 Å / % possible obs: 70 % / Observed criterion σ(I): 1 / Rmerge(I) obs: 0.075 |
-Processing
Software | Name: NUCLSQ / Classification: refinement | ||||||||||||
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Refinement | Resolution: 2.15→8 Å / σ(I): 1 /
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Refine Biso |
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Refinement step | Cycle: LAST / Resolution: 2.15→8 Å
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Refinement | *PLUS Highest resolution: 2.15 Å / Lowest resolution: 8 Å / Num. reflection obs: 931 / σ(I): 1 / Rfactor obs: 0.147 | ||||||||||||
Solvent computation | *PLUS | ||||||||||||
Displacement parameters | *PLUS |