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2.0 Angstrom crystal structure of Ca/CaM N53I:RyR2 peptide complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6XXF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 0.1 M Sodium acetate trihydrate pH 4.5, 10% w/v Polyethylene glycol 10,000
Crystal Properties Matthews coefficient Solvent content 1.92 36.02
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 39.01 α = 90 b = 42.7 β = 90 c = 89.36 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS3 6M 2018-04-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.97624 Diamond I03
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 2 89.36 100 0.1 0.122 0.069 0.994 8.9 5.3 10637
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2 2.05 100 0.368 0.45 0.256 0.908 3.8 5.4
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 6XXF 2 44.72 10591 512 99.887 0.211 0.208 0.2081 0.2597 0.2593 32.703
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3] 0.154 2.248 -2.403
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.583 r_dihedral_angle_3_deg 14.436 r_dihedral_angle_4_deg 10.975 r_lrange_it 7.418 r_lrange_other 7.415 r_scangle_it 5.438 r_scangle_other 5.438 r_dihedral_angle_1_deg 5.155 r_mcangle_it 4.272 r_mcangle_other 4.271
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.583 r_dihedral_angle_3_deg 14.436 r_dihedral_angle_4_deg 10.975 r_lrange_it 7.418 r_lrange_other 7.415 r_scangle_it 5.438 r_scangle_other 5.438 r_dihedral_angle_1_deg 5.155 r_mcangle_it 4.272 r_mcangle_other 4.271 r_scbond_it 3.539 r_scbond_other 3.532 r_mcbond_it 2.878 r_mcbond_other 2.871 r_angle_other_deg 2.394 r_angle_refined_deg 1.457 r_nbd_refined 0.226 r_symmetry_nbd_other 0.224 r_nbd_other 0.22 r_symmetry_nbd_refined 0.173 r_nbtor_refined 0.16 r_symmetry_xyhbond_nbd_refined 0.159 r_xyhbond_nbd_refined 0.139 r_metal_ion_refined 0.134 r_chiral_restr 0.072 r_symmetry_nbtor_other 0.057 r_bond_other_d 0.036 r_bond_refined_d 0.008 r_gen_planes_other 0.008 r_gen_planes_refined 0.007 r_symmetry_xyhbond_nbd_other 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1277 Nucleic Acid Atoms Solvent Atoms 50 Heterogen Atoms 4
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction Aimless data scaling MOLREP phasing