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Yorodumi- PDB-160d: HIGH RESOLUTION CRYSTAL STRUCTURE OF THE A-DNA DECAMER D(CCCGGCCG... -
+Open data
-Basic information
Entry | Database: PDB / ID: 160d | ||||||||||||||||||
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Title | HIGH RESOLUTION CRYSTAL STRUCTURE OF THE A-DNA DECAMER D(CCCGGCCGGG): NOVEL INTERMOLECULAR BASE-PAIRED G*(G.C) TRIPLETS | ||||||||||||||||||
Components | DNA (5'-D(*Keywords | DNA / A-DNA / DOUBLE HELIX | Function / homology | DNA | Function and homology information Method | X-RAY DIFFRACTION / Resolution: 1.65 Å | Authors | Ramakrishnan, B. / Sundaralingam, M. | Citation | Journal: J.Mol.Biol. / Year: 1993 | Title: High resolution crystal structure of the A-DNA decamer d(CCCGGCCGGG). Novel intermolecular base-paired G*(G.C) triplets. Authors: Ramakrishnan, B. / Sundaralingam, M. History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 160d.cif.gz | 23.4 KB | Display | PDBx/mmCIF format |
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PDB format | pdb160d.ent.gz | 14.4 KB | Display | PDB format |
PDBx/mmJSON format | 160d.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/60/160d ftp://data.pdbj.org/pub/pdb/validation_reports/60/160d | 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: 3046.980 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: 2.14 Å3/Da / Density % sol: 42.47 % | ||||||||||||||||||||||||||||
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Crystal grow | Method: vapor diffusion, hanging drop / pH: 7 / Details: pH 7.00, VAPOR DIFFUSION, HANGING DROP / Temp details: ROOM TEMPERATURE | ||||||||||||||||||||||||||||
Components of the solutions |
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-Data collection
Diffraction | Ambient temp details: ROOM TEMPERATURE |
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Diffraction source | Source: ROTATING ANODE |
Detector | Type: SIEMENS-NICOLET / Detector: AREA DETECTOR |
Radiation | Scattering type: x-ray |
Radiation wavelength | Relative weight: 1 |
Reflection | Resolution: 1.65→8 Å / Num. obs: 6033 / Observed criterion σ(I): 2.5 |
Reflection | *PLUS % possible obs: 93 % / Observed criterion σ(I): 2.5 / Num. measured all: 26000 / Rmerge(I) obs: 0.031 |
-Processing
Software | Name: NUCLSQ / Classification: refinement | ||||||||||||
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Refinement | Resolution: 1.65→8 Å / σ(I): 2.5 /
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Refine Biso |
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Refinement step | Cycle: LAST / Resolution: 1.65→8 Å
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Software | *PLUS Name: NUCLSQ / Classification: refinement | ||||||||||||
Refinement | *PLUS Highest resolution: 1.65 Å / Lowest resolution: 8 Å / Num. reflection obs: 6033 / σ(F): 2.5 / Rfactor obs: 0.185 | ||||||||||||
Solvent computation | *PLUS | ||||||||||||
Displacement parameters | *PLUS | ||||||||||||
Refine LS restraints | *PLUS
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