+Open data
-Basic information
Entry | Database: PDB / ID: 192d | ||||||||||||||||||
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Title | RECOMBINATION-LIKE STRUCTURE OF D(CCGCGG) | ||||||||||||||||||
Components | DNA (5'-D(*Keywords | DNA / Z-DNA / DOUBLE HELIX / FLIPPED-OUT BASES | Function / homology | DNA | Function and homology information Method | X-RAY DIFFRACTION / Resolution: 1.92 Å | Authors | Malinina, L. / Urpi, L. / Salas, X. / Huynh-Dinh, T. / Subirana, J.A. | Citation | Journal: J.Mol.Biol. / Year: 1994 | Title: Recombination-like structure of d(CCGCGG). Authors: Malinina, L. / Urpi, L. / Salas, X. / Huynh-Dinh, T. / Subirana, J.A. History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 192d.cif.gz | 17 KB | Display | PDBx/mmCIF format |
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PDB format | pdb192d.ent.gz | 11.7 KB | Display | PDB format |
PDBx/mmJSON format | 192d.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 192d_validation.pdf.gz | 323.3 KB | Display | wwPDB validaton report |
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Full document | 192d_full_validation.pdf.gz | 323.2 KB | Display | |
Data in XML | 192d_validation.xml.gz | 1.5 KB | Display | |
Data in CIF | 192d_validation.cif.gz | 2 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/92/192d ftp://data.pdbj.org/pub/pdb/validation_reports/92/192d | 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 on special symmetry positions |
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-Components
#1: DNA chain | Mass: 1810.205 Da / Num. of mol.: 2 / Source method: obtained synthetically #2: Chemical | ChemComp-NA / | #3: 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 Å3/Da / Density % sol: 38.43 % | ||||||||||||||||||||||||||||||||||||||||
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Crystal grow | Method: vapor diffusion, sitting drop / pH: 6 / Details: pH 6.00, VAPOR DIFFUSION, SITTING DROP | ||||||||||||||||||||||||||||||||||||||||
Components of the solutions |
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Crystal grow | *PLUS pH: 6 | ||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Ambient temp details: ROOM TEMPERATURE |
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Diffraction source | Source: ROTATING ANODE / Type: ELLIOTT GX-21 / Wavelength: 1.5418 |
Detector | Type: OTHER / Detector: DIFFRACTOMETER |
Radiation | Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Highest resolution: 1.92 Å / Num. all: 13022 / Num. obs: 2297 |
Reflection | *PLUS Highest resolution: 1.92 Å / % possible obs: 96.5 % / Redundancy: 5.7 % / Num. measured all: 13022 / Rmerge(I) obs: 0.056 |
-Processing
Software | Name: X-PLOR / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Refinement | Resolution: 1.92→8 Å / σ(F): 2
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Refine Biso |
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Refinement step | Cycle: LAST / Resolution: 1.92→8 Å
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Refine LS restraints |
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Refinement | *PLUS Highest resolution: 1.92 Å / Lowest resolution: 8 Å / σ(F): 2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS |