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- PDB-1azq: HYPERTHERMOPHILE CHROMOSOMAL PROTEIN SAC7D BOUND WITH KINKED DNA ... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1azq | ||||||
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Title | HYPERTHERMOPHILE CHROMOSOMAL PROTEIN SAC7D BOUND WITH KINKED DNA DUPLEX | ||||||
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![]() | DNA BINDING PROTEIN/DNA / COMPLEX (CHROMATIN PROTEIN-DNA) / DNA-BINDING / ARCHEA / KINKED-DNA / MINOR-GROOVE BINDING / INTERCALATION / DNA BINDING PROTEIN-DNA COMPLEX | ||||||
Function / homology | ![]() | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Robinson, H. / Gao, Y.-G. / Mccrary, B.S. / Edmondson, S.P. / Shriver, J.W. / Wang, A.H.-J. | ||||||
![]() | ![]() Title: The hyperthermophile chromosomal protein Sac7d sharply kinks DNA. Authors: Robinson, H. / Gao, Y.G. / McCrary, B.S. / 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 | ![]() | 35.5 KB | Display | ![]() |
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PDB format | ![]() | 25.8 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 421.5 KB | Display | ![]() |
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Full document | ![]() | 422.4 KB | Display | |
Data in XML | ![]() | 6.4 KB | Display | |
Data in CIF | ![]() | 8.1 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1azpSC 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: 2425.629 Da / Num. of mol.: 2 / Source method: obtained synthetically #2: Protein | | Mass: 7626.914 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Production host: ![]() ![]() #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3 Å3/Da / Density % sol: 59 % | ||||||||||||||||||||||||||||||
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Crystal grow | Method: vapor diffusion, hanging drop / pH: 6.5 / Details: pH 6.5, VAPOR DIFFUSION, HANGING DROP | ||||||||||||||||||||||||||||||
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Crystal grow | *PLUS | ||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 298 K |
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Diffraction source | Source: ![]() |
Detector | Type: RIGAKU / Detector: IMAGE PLATE / Date: Apr 15, 1997 |
Radiation | Monochromator: GRAPHITE / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.540598 Å / Relative weight: 1 |
Reflection | Resolution: 1.94→30 Å / Num. obs: 10085 / % possible obs: 87.9 % / Observed criterion σ(I): 1 / Redundancy: 5.2 % / Biso Wilson estimate: 38.8 Å2 / Rmerge(I) obs: 0.057 / Net I/σ(I): 14.2 |
Reflection shell | Resolution: 1.94→2 Å / Redundancy: 2.5 % / Rmerge(I) obs: 0.28 / Mean I/σ(I) obs: 1.8 / % possible all: 65.8 |
Reflection shell | *PLUS % possible obs: 65.8 % |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 1AZP Resolution: 1.94→6 Å / Rfactor Rfree error: 0.012 / Data cutoff high absF: 100000 / Data cutoff low absF: 0.1 / Cross valid method: A POSTERIORI / σ(F): 3
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Refinement step | Cycle: LAST / Resolution: 1.94→6 Å
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Refine LS restraints |
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Xplor file |
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Software | *PLUS Name: ![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS |