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- PDB-6y9p: Crystal structure of Whirlin PDZ3_C-ter in complex with Harmonin ... -
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Open data
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Basic information
Entry | Database: PDB / ID: 6y9p | ||||||
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Title | Crystal structure of Whirlin PDZ3_C-ter in complex with Harmonin a1 C-terminal PDZ binding motif peptide | ||||||
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Function / homology | ![]() axon collateral / paranodal junction maintenance / periciliary membrane compartment / USH2 complex / stereocilia ankle link / inner ear receptor cell differentiation / stereocilia ankle link complex / cerebellar Purkinje cell layer formation / sensory perception of light stimulus / photoreceptor connecting cilium ...axon collateral / paranodal junction maintenance / periciliary membrane compartment / USH2 complex / stereocilia ankle link / inner ear receptor cell differentiation / stereocilia ankle link complex / cerebellar Purkinje cell layer formation / sensory perception of light stimulus / photoreceptor connecting cilium / stereocilium tip / inner ear receptor cell stereocilium organization / detection of mechanical stimulus involved in sensory perception of sound / stereocilium bundle / stereocilium / ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() 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 | ![]() | 251.1 KB | Display | ![]() |
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PDB format | ![]() | 196.7 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 6y38C ![]() 6y9nC ![]() 6y9oC ![]() 6y9qC ![]() 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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2 | ![]()
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3 | ![]()
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4 | ![]()
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5 | ![]()
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6 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 11359.070 Da / Num. of mol.: 6 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() Production host: ![]() ![]() ![]() References: UniProt: Q80VW5 #2: Protein/peptide | Mass: 1404.496 Da / Num. of mol.: 6 / Source method: obtained synthetically / Source: (synth.) ![]() ![]() ![]() #3: Water | ChemComp-HOH / | ![]() |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.26 Å3/Da / Density % sol: 45.57 % |
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Crystal grow![]() | Temperature: 277.15 K / Method: vapor diffusion, hanging drop / Details: 0.1 M Tris pH 8.5, 0.2M CaCl, 25% w/v PEG 4000 |
-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: Dec 11, 2017 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength![]() |
Reflection | Resolution: 3.169→45.82 Å / Num. obs: 10622 / % possible obs: 86.25 % / Redundancy: 3.3 % / CC1/2: 0.987 / CC star: 0.997 / Net I/σ(I): 6.2 |
Reflection shell | Resolution: 3.169→3.282 Å / Num. unique obs: 1085 / CC1/2: 0.373 / CC star: 0.737 |
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Processing
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Refinement | Method to determine structure![]() ![]() Starting model: 1UFX Resolution: 3.169→45.82 Å / Cross valid method: FREE R-VALUE
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Displacement parameters | Biso mean: 103.46 Å2 | ||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 3.169→45.82 Å
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Refine LS restraints |
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