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- PDB-6eo3: Conformational dynamism for DNA interaction in Salmonella typhimu... -
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Open data
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Basic information
Entry | Database: PDB / ID: 6eo3 | ||||||||||||
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Title | Conformational dynamism for DNA interaction in Salmonella typhimurium RcsB response regulator. S207C P212121 | ||||||||||||
![]() | Transcriptional regulatory protein RcsB | ||||||||||||
![]() | DNA BINDING PROTEIN / Transcriptional factor | ||||||||||||
Function / homology | ![]() phosphorelay signal transduction system / regulation of DNA-templated transcription / DNA binding Similarity search - Function | ||||||||||||
Biological species | ![]() | ||||||||||||
Method | ![]() ![]() ![]() | ||||||||||||
![]() | Casino, P. / Marina, A. | ||||||||||||
Funding support | ![]()
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![]() | ![]() Title: Conformational dynamism for DNA interaction in the Salmonella RcsB response regulator. Authors: Casino, P. / Miguel-Romero, L. / Huesa, J. / Garcia, P. / Garcia-Del Portillo, F. / Marina, A. | ||||||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 164.1 KB | Display | ![]() |
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PDB format | ![]() | 130.6 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 446.2 KB | Display | ![]() |
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Full document | ![]() | 447.3 KB | Display | |
Data in XML | ![]() | 15.6 KB | Display | |
Data in CIF | ![]() | 20.5 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 5o8ySC ![]() 5o8zC ![]() 6eo2C C: citing same article ( S: Starting model for refinement |
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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: Protein | Mass: 23101.035 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Details: The side chain for the following residues could not be traced, so they remain as Ala: N2, K127, E132, D148, K149, R150, R160, K180, V208 Source: (gene. exp.) ![]() Gene: rcsB, STM2270 / Production host: ![]() ![]() #2: Chemical | #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.1 Å3/Da / Density % sol: 41.51 % |
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Crystal grow | Temperature: 294 K / Method: vapor diffusion, sitting drop Details: 16 % PEG4000, 0.2 M lithium sulfate and Tris pH 8.5 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS3 S 6M / Detector: PIXEL / Date: Sep 11, 2017 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.91587 Å / Relative weight: 1 |
Reflection | Resolution: 2.5→75.2 Å / Num. obs: 14033 / % possible obs: 100 % / Redundancy: 6.8 % / CC1/2: 0.999 / Rmerge(I) obs: 0.067 / Rpim(I) all: 0.027 / Rrim(I) all: 0.072 / Net I/σ(I): 17.7 |
Reflection shell | Resolution: 2.5→2.6 Å / Redundancy: 5.9 % / Rmerge(I) obs: 0.653 / Mean I/σ(I) obs: 2.7 / Num. unique all: 1541 / CC1/2: 0.817 / Rpim(I) all: 0.295 / Rrim(I) all: 0.718 / % possible all: 100 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 5O8Y Resolution: 2.5→52.83 Å / Cor.coef. Fo:Fc: 0.948 / Cor.coef. Fo:Fc free: 0.909 / SU B: 26.322 / SU ML: 0.278 / Cross valid method: THROUGHOUT / ESU R: 1.005 / ESU R Free: 0.33 / Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 58.915 Å2
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Refinement step | Cycle: 1 / Resolution: 2.5→52.83 Å
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Refine LS restraints |
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