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Yorodumi- PDB-181d: SEQUENCE-DEPENDENT MICROHETEROGENEITY OF Z-DNA: THE CRYSTAL AND M... -
+Open data
-Basic information
Entry | Database: PDB / ID: 181d | ||||||
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Title | SEQUENCE-DEPENDENT MICROHETEROGENEITY OF Z-DNA: THE CRYSTAL AND MOLECULAR STRUCTURES OF D(CACGCG).D(CGCGTG) AND D(CGCACG).D(CGTGCG) | ||||||
Components |
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Keywords | DNA / Z-DNA / DOUBLE HELIX | ||||||
Function / homology | DNA Function and homology information | ||||||
Method | X-RAY DIFFRACTION / Resolution: 1.6 Å | ||||||
Authors | Sadasivan, C. / Gautham, N. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 1995 Title: Sequence-dependent microheterogeneity of Z-DNA: the crystal and molecular structures of d(CACGCG).d(CGCGTG) and d(CGCACG).d(CGTGCG). Authors: Sadasivan, C. / Gautham, N. #1: Journal: To be Published Title: Plasticity of Z-DNA as Observed in the Crystal Structures of Non-Selfcomplementary Hexanucleotides Authors: Sadasivan, C. / Gautham, N. #2: Journal: Acta Crystallogr.,Sect.D / Year: 1994 Title: Space Group Degeneracy in the Packing of a Non-Selfcomplementary Z-DNA Hexamer Authors: Sadasivan, C. / Karthe, P. / Gautham, N. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 181d.cif.gz | 17 KB | Display | PDBx/mmCIF format |
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PDB format | pdb181d.ent.gz | 9.8 KB | Display | PDB format |
PDBx/mmJSON format | 181d.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 181d_validation.pdf.gz | 322.1 KB | Display | wwPDB validaton report |
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Full document | 181d_full_validation.pdf.gz | 332.5 KB | Display | |
Data in XML | 181d_validation.xml.gz | 2.7 KB | Display | |
Data in CIF | 181d_validation.cif.gz | 3.5 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/81/181d ftp://data.pdbj.org/pub/pdb/validation_reports/81/181d | HTTPS FTP |
-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: DNA chain | Mass: 1794.206 Da / Num. of mol.: 1 / Source method: obtained synthetically |
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#2: DNA chain | Mass: 1825.216 Da / Num. of mol.: 1 / Source method: obtained synthetically |
#3: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 1.7 Å3/Da / Density % sol: 27.63 % | |||||||||||||||||||||||||||||||||||
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Crystal grow | Method: vapor diffusion, hanging drop / pH: 6.9 / Details: pH 6.90, VAPOR DIFFUSION, HANGING DROP / Temp details: ROOM TEMPERATURE | |||||||||||||||||||||||||||||||||||
Components of the solutions |
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Crystal grow | *PLUS pH: 6.9 | |||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 296 K |
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Detector | Type: ENRAF-NONIUS CAD4 / Detector: DIFFRACTOMETER |
Radiation | Scattering type: x-ray |
Radiation wavelength | Relative weight: 1 |
Reflection | Highest resolution: 1.6 Å / Num. obs: 3912 |
Reflection | *PLUS Highest resolution: 1.6 Å |
-Processing
Software | Name: NUCLSQ / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Refinement | Resolution: 1.6→8 Å / σ(F): 2 /
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Refine Biso |
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Refinement step | Cycle: LAST / Resolution: 1.6→8 Å
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Refine LS restraints |
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Refinement | *PLUS Highest resolution: 1.6 Å / Lowest resolution: 8 Å / σ(F): 2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS |