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- PDB-6pyi: Crystal structure of ligand-binding domain of Pseudomonas fluores... -
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Open data
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Basic information
Entry | Database: PDB / ID: 6pyi | ||||||
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Title | Crystal structure of ligand-binding domain of Pseudomonas fluorescens chemoreceptor CtaA | ||||||
![]() | Putative methyl-accepting chemotaxis protein | ||||||
![]() | SIGNALING PROTEIN / Bacterial chemotaxis / chemoreceptor / double Cache / ligand binding domain | ||||||
Function / homology | ![]() transmembrane signaling receptor activity / chemotaxis / signal transduction / plasma membrane Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Ud-Din, I.A. / Khan, M.F. / Roujeinikova, A. | ||||||
Funding support | ![]()
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![]() | ![]() Title: Broad Specificity of Amino Acid Chemoreceptor CtaA ofPseudomonas fluorescensIs Afforded by Plasticity of Its Amphipathic Ligand-Binding Pocket. Authors: Ud-Din, A.I.M.S. / Khan, M.F. / Roujeinikova, 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 | ![]() | 60.4 KB | Display | ![]() |
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PDB format | ![]() | 41.3 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 441.7 KB | Display | ![]() |
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Full document | ![]() | 443.7 KB | Display | |
Data in XML | ![]() | 11.9 KB | Display | |
Data in CIF | ![]() | 16.4 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 6pxyC ![]() 6py3C ![]() 6py4C ![]() 6py5C ![]() 6q0fC ![]() 6q0gC ![]() 3c8cS 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: Protein | Mass: 27055.496 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() Strain: Pf0-1 / Gene: Pfl01_4431 / Production host: ![]() ![]() |
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#2: Chemical | ChemComp-ALA / |
#3: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.68 Å3/Da / Density % sol: 57.46 % |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, hanging drop / Details: Ammonium sulfate and Tris-HCl |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 210r / Detector: CCD / Date: Oct 29, 2015 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9537 Å / Relative weight: 1 |
Reflection | Resolution: 1.95→37.5 Å / Num. obs: 20853 / % possible obs: 99 % / Redundancy: 5.1 % / Rmerge(I) obs: 0.07 / Net I/σ(I): 16.2 |
Reflection shell | Resolution: 1.95→2.06 Å / Rmerge(I) obs: 0.39 / Mean I/σ(I) obs: 4.8 / Num. unique obs: 3032 / % possible all: 100 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 3C8C Resolution: 1.95→31.451 Å / SU ML: 0.2 / Cross valid method: THROUGHOUT / σ(F): 1.34 / Phase error: 28.45 / Stereochemistry target values: ML
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | ||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso max: 99.62 Å2 / Biso mean: 42.1821 Å2 / Biso min: 20.51 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: final / Resolution: 1.95→31.451 Å
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Refine LS restraints |
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LS refinement shell | Refine-ID: X-RAY DIFFRACTION / Rfactor Rfree error: 0
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