Deposition Summary
Depositor: Keitaro Yamashita
Contact: [email protected]
Deposition date: 2020-10-21
Last modified: 2020-11-05
DOI: 10.11577/1679953
Associated PDB: 7CJ3
Publication Details
Title: Structural insights into the mechanism of rhodopsin phosphodiesterase
Authors: Tatsuya Ikuta et al.
Journal: Nature Communications
Year: 2020
DOI: 10.1038/s41467-020-19376-7
Experimental Conditions
Method: Synchrotron Crystallography (small-wedge)
Sample: RhPDE-TMD
Wavelength: 1.00 Å (12.4 keV)
Lightsource: SPring-8
Beamline: BL32XU
Data Files
Auxiliary Files
Raw Data: 180608_BL32XU/ (4 KB)
Raw Data: 180803_BL32XU/ (4 KB)


Crystal structures of TMD of Rhodopsin phosphodiesterase (PDB code: 7CJ3). 6160 small-wedge (10°/crystal) datasets collected from loop-harvested microcrystals using EIGER X 9M detector at a wavelength of 1 Å on BL32XU, SPring-8. Beam size was around 15×10 µm2 and oscillation step was 0.1°. The crystals belonged to space group P212121 with unit cell parameters a~66, b~74, c~117 Å. 864 datasets were indexed and integrated using XDS with KAMO pipeline. Finally 271 integrated results were merged at 2.6 Å resolution after CC-based clustering and outlier rejection by KAMO in the published result.

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