+Open data
-Basic information
Entry | Database: PDB / ID: 1cs7 | ||||||||||||||||||
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Title | SYNTHETIC DNA HAIRPIN WITH STILBENEDIETHER LINKER | ||||||||||||||||||
Components | 5'-D(GP*Keywords | DNA / DNA HAIRPIN | Function / homology | STRONTIUM ION / DNA / DNA (> 10) | Function and homology information Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 3.2 Å | Authors | Lewis, F.D. / Liu, X. / Wu, Y. / Miller, S.E. / Wasielewski, M.R. / Letsinger, R.L. / Sanishvili, R. / Joachimiak, A. / Tereshko, V. / Egli, M. | Citation | Journal: J.Am.Chem.Soc. / Year: 1999 | Title: Structure and Photoinduced Electron Transfer in Exceptionally Stable Synthetic DNA Hairpins with Stilbenediether Linkers Authors: Lewis, F.D. / Liu, X. / Wu, Y. / Miller, S.E. / Wasielewski, M.R. / Letsinger, R.L. / Sanishvili, R. / Joachimiak, A. / Tereshko, V. / Egli, M. History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1cs7.cif.gz | 35.6 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1cs7.ent.gz | 24.8 KB | Display | PDB format |
PDBx/mmJSON format | 1cs7.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1cs7_validation.pdf.gz | 404.7 KB | Display | wwPDB validaton report |
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Full document | 1cs7_full_validation.pdf.gz | 410.3 KB | Display | |
Data in XML | 1cs7_validation.xml.gz | 4.7 KB | Display | |
Data in CIF | 1cs7_validation.cif.gz | 5.9 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/cs/1cs7 ftp://data.pdbj.org/pub/pdb/validation_reports/cs/1cs7 | HTTPS FTP |
-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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3 |
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4 |
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Unit cell |
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-Components
#1: DNA chain | Mass: 4098.678 Da / Num. of mol.: 4 / Source method: obtained synthetically #2: Chemical | ChemComp-SR / #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 3.42 Å3/Da / Density % sol: 64.05 % | ||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, hanging drop / pH: 6.3 Details: OLIGONUCLEOTIDE, SRCL2, NA-CACODYLATE BUFFER, 2-METHYL-2,4-PENTANEDIOL, pH 6.3, VAPOR DIFFUSION, HANGING DROP at 298K | ||||||||||||||||||||||||||||||
Components of the solutions |
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Crystal grow | *PLUS | ||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: APS / Beamline: 19-ID |
Detector | Type: APS-1 / Detector: CCD / Date: Feb 6, 1999 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Relative weight: 1 |
Reflection | Resolution: 3.15→30 Å / Num. all: 3434 / Num. obs: 3434 / % possible obs: 97.1 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 3 % / Rmerge(I) obs: 0.097 |
Reflection shell | Resolution: 3.15→3.26 Å / Rmerge(I) obs: 0.095 / % possible all: 99 |
Reflection | *PLUS |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT / Resolution: 3.2→8 Å / Cross valid method: THROUGHOUT / σ(F): 0.5 / Stereochemistry target values: PARKINSON et al.
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Refinement step | Cycle: LAST / Resolution: 3.2→8 Å
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Refine LS restraints |
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Software | *PLUS Name: CNS / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Highest resolution: 3.2 Å / Lowest resolution: 8 Å / σ(F): 0.5 / % reflection Rfree: 7 % | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS |