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- PDB-1c8c: CRYSTAL STRUCTURES OF THE CHROMOSOMAL PROTEINS SSO7D/SAC7D BOUND ... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1c8c | ||||||
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Title | CRYSTAL STRUCTURES OF THE CHROMOSOMAL PROTEINS SSO7D/SAC7D BOUND TO DNA CONTAINING T-G MISMATCHED BASE PAIRS | ||||||
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![]() | DNA BINDING PROTEIN/DNA / DNA BINDING PROTEIN / PROTEIN-DNA INTERACTION / PROTEIN STABILITY / HYPERTHERMOPHILE / ACHAEABACTERIA / ELECTROSTATICS / MOLECULAR MODELING / T-G MISMATCH / DNA BINDING PROTEIN-DNA COMPLEX | ||||||
Function / homology | ![]() | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Su, S. / Gao, Y.-G. / Robinson, H. / Liaw, Y.-C. / Edmondson, S.P. / Shriver, J.W. / Wang, A.H.-J. | ||||||
![]() | ![]() Title: Crystal structures of the chromosomal proteins Sso7d/Sac7d bound to DNA containing T-G mismatched base-pairs. Authors: Su, S. / Gao, Y.G. / Robinson, H. / Liaw, Y.C. / Edmondson, S.P. / Shriver, J.W. / Wang, A.H. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 50.6 KB | Display | ![]() |
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PDB format | ![]() | 33.2 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 421.8 KB | Display | ![]() |
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Full document | ![]() | 429.6 KB | Display | |
Data in XML | ![]() | 8.9 KB | Display | |
Data in CIF | ![]() | 11.9 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1ca5C ![]() 1ca6C ![]() 1azpS S: Starting model for refinement C: citing same article ( |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components
#1: DNA chain | Mass: 2442.616 Da / Num. of mol.: 2 / Source method: obtained synthetically #2: Protein | | Mass: 7236.563 Da / Num. of mol.: 1 / Source method: isolated from a natural source Details: GERMAN COLLECTION OF MICROORGANISMS (DSM) 1617, #1616 Source: (natural) ![]() ![]() #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 1.8 Å3/Da / Density % sol: 39 % | ||||||||||||||||||||||||||||||
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Crystal grow | Method: vapor diffusion, hanging drop / pH: 6.5 Details: PROTEIN WAS CRYSTALLIZED FROM 1.3MM SSO7D, 1.3MM DUPLEX DNA, 2.5 MM TRIS (PH 6.5), 2.5% PEG 400, EQUILIBRATED AGAINST 15% PEG 400 at pH 6.5, VAPOR DIFFUSION, HANGING DROP | ||||||||||||||||||||||||||||||
Components of the solutions |
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Crystal grow | *PLUS Method: vapor diffusion, sitting drop | ||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 123 K |
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Diffraction source | Source: ![]() |
Detector | Type: RIGAKU RAXIS IIC / Detector: IMAGE PLATE / Date: Aug 15, 1998 |
Radiation | Monochromator: GRAPHITE / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 1.38→20 Å / Num. obs: 14498 / % possible obs: 89.1 % / Observed criterion σ(I): 1 / Rmerge(I) obs: 0.054 |
Reflection shell | *PLUS Highest resolution: 1.45 Å / Lowest resolution: 1.52 Å / % possible obs: 63 % |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 1AZP Resolution: 1.45→8 Å / Cross valid method: THROUGHOUT / σ(F): 4
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Refinement step | Cycle: LAST / Resolution: 1.45→8 Å
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Software | *PLUS Name: SHELXL-97 / Classification: refinement | ||||||||||||||||||||
Refinement | *PLUS σ(F): 4 / % reflection Rfree: 5 % / Rfactor Rwork: 0.229 | ||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||
Refine LS restraints | *PLUS
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