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- PDB-6y9q: Crystal structure of Whirlin PDZ3_C-ter in complex with Taperin i... -
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Open data
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Basic information
Entry | Database: PDB / ID: 6y9q | ||||||
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Title | Crystal structure of Whirlin PDZ3_C-ter in complex with Taperin internal PDZ binding motif peptide | ||||||
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![]() | STRUCTURAL PROTEIN / Whirlin / PDZ / Myosin 15a / complex | ||||||
Function / homology | ![]() stereocilium maintenance / axon collateral / paranodal junction maintenance / periciliary membrane compartment / USH2 complex / stereocilia ankle link / stereocilium base / inner ear receptor cell differentiation / stereocilia ankle link complex / sensory perception of light stimulus ...stereocilium maintenance / axon collateral / paranodal junction maintenance / periciliary membrane compartment / USH2 complex / stereocilia ankle link / stereocilium base / inner ear receptor cell differentiation / stereocilia ankle link complex / sensory perception of light stimulus / cerebellar Purkinje cell layer formation / photoreceptor connecting cilium / stereocilium tip / inner ear receptor cell stereocilium organization / detection of mechanical stimulus involved in sensory perception of sound / stereocilium bundle / stereocilium / apical dendrite / retina homeostasis / auditory receptor cell stereocilium organization / phosphatase binding / photoreceptor inner segment / ciliary basal body / dendritic shaft / establishment of localization in cell / actin filament / sensory perception of sound / establishment of protein localization / cilium / presynapse / growth cone / postsynapse / neuron projection / protein domain specific binding / neuronal cell body / positive regulation of gene expression / perinuclear region of cytoplasm / identical protein binding / plasma membrane / cytosol Similarity search - Function | ||||||
Biological species | ![]() ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Zhu, Y. / Delhommel, F. / Haouz, A. / Caillet-Saguy, C. / Vaney, M. / Mechaly, A.E. / Wolff, N. | ||||||
Funding support | ![]()
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![]() | ![]() Title: Deciphering the Unexpected Binding Capacity of the Third PDZ Domain of Whirlin to Various Cochlear Hair Cell Partners. Authors: Zhu, Y. / Delhommel, F. / Cordier, F. / Luchow, S. / Mechaly, A. / Colcombet-Cazenave, B. / Girault, V. / Pepermans, E. / Bahloul, A. / Gautier, C. / Brule, S. / Raynal, B. / Hoos, S. / ...Authors: Zhu, Y. / Delhommel, F. / Cordier, F. / Luchow, S. / Mechaly, A. / Colcombet-Cazenave, B. / Girault, V. / Pepermans, E. / Bahloul, A. / Gautier, C. / Brule, S. / Raynal, B. / Hoos, S. / Haouz, A. / Caillet-Saguy, C. / Ivarsson, Y. / Wolff, N. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 39.3 KB | Display | ![]() |
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PDB format | ![]() | 25.5 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 431 KB | Display | ![]() |
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Full document | ![]() | 432.1 KB | Display | |
Data in XML | ![]() | 8.4 KB | Display | |
Data in CIF | ![]() | 11.5 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 6y38C ![]() 6y9nC ![]() 6y9oC ![]() 6y9pC ![]() 1ufxS 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 on special symmetry positions |
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Components
#1: Protein | Mass: 11359.070 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Production host: ![]() ![]() References: UniProt: Q80VW5 |
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#2: Protein/peptide | Mass: 1845.953 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) ![]() |
#3: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.48 Å3/Da / Density % sol: 50.4 % |
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Crystal grow | Temperature: 277.15 K / Method: vapor diffusion, sitting drop / Details: 0.2 M LiCl, 25 %w/v PEG 8000 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS 300K / Detector: PIXEL / Date: Jan 31, 2019 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9786 Å / Relative weight: 1 |
Reflection | Resolution: 1.315→29.71 Å / Num. obs: 31851 / % possible obs: 99.61 % / Redundancy: 19.5 % / CC1/2: 1 / CC star: 1 / Net I/σ(I): 33.87 |
Reflection shell | Resolution: 1.315→1.362 Å / Num. unique obs: 3089 / CC1/2: 0.975 / CC star: 0.994 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 1UFX Resolution: 1.315→29.71 Å / Cross valid method: FREE R-VALUE
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Displacement parameters | Biso mean: 21.88 Å2 | ||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.315→29.71 Å
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Refine LS restraints |
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