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- PDB-3a0v: PAS domain of histidine kinase ThkA (TM1359) (SeMet, F486M/F489M) -
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Open data
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Basic information
Entry | Database: PDB / ID: 3a0v | ||||||
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Title | PAS domain of histidine kinase ThkA (TM1359) (SeMet, F486M/F489M) | ||||||
![]() | Sensor protein | ||||||
![]() | TRANSFERASE / PAS-fold / Kinase / Phosphoprotein / Two-component regulatory system | ||||||
Function / homology | ![]() histidine kinase / phosphorelay sensor kinase activity / nucleotide binding / regulation of DNA-templated transcription / metal ion binding Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Yamada, S. / Sugimoto, H. / Kobayashi, M. / Ohno, A. / Nakamura, H. / Shiro, Y. | ||||||
![]() | ![]() Title: Structure of PAS-linked histidine kinase and the response regulator complex Authors: Yamada, S. / Sugimoto, H. / Kobayashi, M. / Ohno, A. / Nakamura, H. / Shiro, Y. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 31.6 KB | Display | ![]() |
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PDB format | ![]() | 24.2 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 431.4 KB | Display | ![]() |
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Full document | ![]() | 432.3 KB | Display | |
Data in XML | ![]() | 7.4 KB | Display | |
Data in CIF | ![]() | 9.6 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 3a0rC ![]() 3a0sC ![]() 3a0tC ![]() 3a0uC ![]() 3a0wC ![]() 3a0xC ![]() 3a0yC ![]() 3a0zC ![]() 3a10C 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: Protein | Mass: 11328.541 Da / Num. of mol.: 1 / Fragment: PAS domain / Mutation: F486Mse, F489Mse Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() | ||
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#2: Chemical | ChemComp-EOH / #3: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.4 Å3/Da / Density % sol: 48.67 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion / pH: 6.2 Details: 40% ethanol, 0.05M phosphate-citrate, 5% PEG1000, pH 6.2, VAPOR DIFFUSION, temperature 293K |
-Data collection
Diffraction | Mean temperature: 100 K | ||||||||||||
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Diffraction source | Source: ![]() ![]() ![]() | ||||||||||||
Detector | Type: RIGAKU JUPITER 210 / Detector: CCD / Date: Oct 20, 2005 | ||||||||||||
Radiation | Monochromator: DIAMOND 111 DOUBLE CRYSTAL MONOCHROMATOR / Protocol: MAD / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | ||||||||||||
Radiation wavelength |
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Reflection | Resolution: 1.7→20 Å / Num. obs: 12735 / % possible obs: 99.2 % / Observed criterion σ(I): -3 / Redundancy: 15.2 % / Biso Wilson estimate: 26.7 Å2 / Rsym value: 0.047 / Net I/σ(I): 55.5 | ||||||||||||
Reflection shell | Resolution: 1.7→1.76 Å / Redundancy: 13.9 % / Mean I/σ(I) obs: 10.2 / Rsym value: 0.126 / % possible all: 99.6 |
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Processing
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Refinement | Method to determine structure: ![]()
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso max: 52.53 Å2 / Biso mean: 21.354 Å2 / Biso min: 2 Å2
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Refinement step | Cycle: LAST / Resolution: 1.7→20 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.7→1.744 Å / Total num. of bins used: 20
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