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Yorodumi- PDB-4hnr: High resolution structure of Chemotaxis response regulator CheY4 ... -
+Open data
-Basic information
Entry | Database: PDB / ID: 4hnr | ||||||
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Title | High resolution structure of Chemotaxis response regulator CheY4 of Vibrio cholerae | ||||||
Components | Chemotaxis protein CheY | ||||||
Keywords | SIGNALING PROTEIN / Rossmann fold / response regulator protein / kinase | ||||||
Function / homology | Function and homology information | ||||||
Biological species | Vibrio cholerae (bacteria) | ||||||
Method | X-RAY DIFFRACTION / MOLECULAR REPLACEMENT / Resolution: 1.9 Å | ||||||
Authors | Biswas, M. / Sen, U. / Dasgupta, J. | ||||||
Citation | Journal: Plos One / Year: 2013 Title: Conformational Barrier of CheY3 and Inability of CheY4 to Bind FliM Control the Flagellar Motor Action in Vibrio cholerae. Authors: Biswas, M. / Dey, S. / Khamrui, S. / Sen, U. / Dasgupta, J. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 4hnr.cif.gz | 40.2 KB | Display | PDBx/mmCIF format |
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PDB format | pdb4hnr.ent.gz | 26.7 KB | Display | PDB format |
PDBx/mmJSON format | 4hnr.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/hn/4hnr ftp://data.pdbj.org/pub/pdb/validation_reports/hn/4hnr | HTTPS FTP |
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-Related structure data
Related structure data | 3to5C 4h60C 4hnqC 4hnsC 4jp1C 4lx8C 4h6oS C: citing same article (ref.) S: Starting model for refinement |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 13320.438 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Vibrio cholerae (bacteria) / Gene: VC_A1096 / Production host: Escherichia coli (E. coli) / References: UniProt: Q9KKK8, UniProt: Q6BBK6*PLUS |
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#2: Chemical | ChemComp-SO4 / |
#3: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.47 Å3/Da / Density % sol: 50.11 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 9 Details: 1.6% AMS, pH 9.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ROTATING ANODE / Type: RIGAKU RU200 / Wavelength: 1.54 Å |
Detector | Type: MAR scanner 345 mm plate / Detector: IMAGE PLATE / Date: Jun 20, 2011 |
Radiation | Monochromator: Ni filter / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.54 Å / Relative weight: 1 |
Reflection | Resolution: 1.9→30 Å / Num. all: 11181 / Num. obs: 10649 / % possible obs: 98.6 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Biso Wilson estimate: 30.7 Å2 |
Reflection shell | Highest resolution: 1.9 Å |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 4H6O Resolution: 1.9→29 Å / Rfactor Rfree error: 0.01 / Data cutoff high absF: 980743.22 / Data cutoff low absF: 0 / Isotropic thermal model: RESTRAINED / Cross valid method: THROUGHOUT / σ(F): 0 / Details: BULK SOLVENT MODEL USED
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Solvent computation | Solvent model: FLAT MODEL / Bsol: 60.5503 Å2 / ksol: 0.35 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 39.1 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 1.9→29 Å
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Refine LS restraints |
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Refine LS restraints NCS | NCS model details: NONE | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
LS refinement shell | Resolution: 1.9→2.02 Å / Rfactor Rfree error: 0.042 / Total num. of bins used: 6
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Xplor file |
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