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Yorodumi- PDB-1d99: STRUCTURAL FEATURES AND HYDRATION OF A DODECAMER DUPLEX CONTAININ... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1d99 | ||||||||||||||||||
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Title | STRUCTURAL FEATURES AND HYDRATION OF A DODECAMER DUPLEX CONTAINING TWO C.A MISPAIRS | ||||||||||||||||||
Components | DNA (5'-D(*Keywords | DNA / B-DNA / DOUBLE HELIX / MISMATCHED | Function / homology | DNA / DNA (> 10) | Function and homology information Method | X-RAY DIFFRACTION / Resolution: 2.5 Å | Authors | Hunter, W.N. / Brown, T. / Kennard, O. | Citation | Journal: Nucleic Acids Res. / Year: 1987 Title: Structural features and hydration of a dodecamer duplex containing two C.A mispairs. Authors: Hunter, W.N. / Brown, T. / Kennard, O. #1: Journal: Nature / Year: 1986 Title: Structure of an Adenine. Cytosine Base Pair in DNA and Its Implications for Mismatch Repair Authors: Hunter, W.N. / Brown, T. / Anand, N.N. / Kennard, O. History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1d99.cif.gz | 21.6 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1d99.ent.gz | 13.4 KB | Display | PDB format |
PDBx/mmJSON format | 1d99.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1d99_validation.pdf.gz | 324.2 KB | Display | wwPDB validaton report |
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Full document | 1d99_full_validation.pdf.gz | 330.8 KB | Display | |
Data in XML | 1d99_validation.xml.gz | 2.4 KB | Display | |
Data in CIF | 1d99_validation.cif.gz | 3.5 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/d9/1d99 ftp://data.pdbj.org/pub/pdb/validation_reports/d9/1d99 | 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: 3647.393 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: 2.35 Å3/Da / Density % sol: 47.64 % | |||||||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 277 K / Method: vapor diffusion / pH: 7.4 / Details: pH 7.40, VAPOR DIFFUSION, temperature 277.00K | |||||||||||||||||||||||||||||||||||
Components of the solutions |
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Crystal grow | *PLUS pH: 7.5 / Method: vapor diffusionDetails: referred to 'Wing, R..', (1980) 'Nature', 287, 755-758 | |||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 277 K |
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Detector | Detector: DIFFRACTOMETER |
Radiation | Scattering type: x-ray |
Radiation wavelength | Relative weight: 1 |
Reflection | Highest resolution: 2.5 Å / Num. obs: 2452 / Observed criterion σ(F): 2 |
Reflection | *PLUS Highest resolution: 2.5 Å |
-Processing
Software | Name: NUCLSQ / Classification: refinement | ||||||||||||
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Refinement | Resolution: 2.5→8 Å / σ(I): 2 /
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Refine Biso |
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Refinement step | Cycle: LAST / Resolution: 2.5→8 Å
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Refinement | *PLUS Highest resolution: 2.5 Å / Lowest resolution: 8 Å / σ(I): 2 / Num. reflection obs: 2029 / Rfactor obs: 0.19 | ||||||||||||
Solvent computation | *PLUS | ||||||||||||
Displacement parameters | *PLUS |