7TGT
Structure of Cyclophilin D Peptidyl-Prolyl Isomerase Domain bound to Macrocyclic Inhibitor A26
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | NSLS-II BEAMLINE 17-ID-2 |
Synchrotron site | NSLS-II |
Beamline | 17-ID-2 |
Temperature [K] | 100 |
Detector technology | PIXEL |
Collection date | 2019-04-30 |
Detector | DECTRIS EIGER X 16M |
Wavelength(s) | 0.97933 |
Spacegroup name | P 1 21 1 |
Unit cell lengths | 36.061, 67.087, 38.662 |
Unit cell angles | 90.00, 101.22, 90.00 |
Refinement procedure
Resolution | 37.920 - 1.060 |
R-factor | 0.1368 |
Rwork | 0.136 |
R-free | 0.14470 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 2bit |
RMSD bond length | 0.007 |
RMSD bond angle | 1.037 |
Data reduction software | XDS |
Data scaling software | XDS |
Phasing software | PHASER |
Refinement software | PHENIX (1.17.1_3660) |
Data quality characteristics
Overall | Outer shell | |
Low resolution limit [Å] | 37.923 | 1.073 |
High resolution limit [Å] | 1.055 | 1.055 |
Rmerge | 0.057 | 0.461 |
Rmeas | 0.062 | 0.558 |
Rpim | 0.024 | 0.307 |
Number of reflections | 78970 | 2430 |
<I/σ(I)> | 15.03 | 2.3 |
Completeness [%] | 95.5 | 59.6 |
Redundancy | 6.3 | 3 |
CC(1/2) | 0.999 | 0.999 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, HANGING DROP | 7.3 | 298 | 29% PEG 3350 0.5 M KH2PO4 Protein and inhibitor were mixed in ratio 1:1.5 1 uL of protein:inhibitor complex was mixed with 1 uL mother liquor |