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Structure of Calmodulin Bound to the Cardiac Ryanodine Receptor (RyR2) at Residues: Phe4246 to Val4271
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2BCX
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 277 0.2M sodium acetate, 0.1M Tris pH 8.5, 30%(w/v) PEG 4000
Crystal Properties Matthews coefficient Solvent content 2.08 40.9
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 33.169 α = 90 b = 62.403 β = 107.494 c = 43.19 γ = 90
Symmetry Space Group P 1 21 1
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 EIGER X 16M 2018-11-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 24-ID-E 0.97918 APS 24-ID-E
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 1.65 62.4 97.9 0.05 0.06 0.032 0.997 9.3 3.4 19805 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.65 1.68 96.7 0.865 1.03 0.81 1.5 3.4
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 FREE R-VALUE 2bcx 1.65 41.192 19786 980 97.68 0.211 0.2091 0.2194 0.2455 0.2566 41.159
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] 2.936 -0.192 1.294 -3.428
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.789 r_dihedral_angle_3_deg 18.217 r_dihedral_angle_4_deg 16.635 r_lrange_it 6.298 r_lrange_other 6.295 r_dihedral_angle_1_deg 4.978 r_scangle_it 4.13 r_scangle_other 4.128 r_mcangle_other 3.048 r_mcangle_it 3.046
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.789 r_dihedral_angle_3_deg 18.217 r_dihedral_angle_4_deg 16.635 r_lrange_it 6.298 r_lrange_other 6.295 r_dihedral_angle_1_deg 4.978 r_scangle_it 4.13 r_scangle_other 4.128 r_mcangle_other 3.048 r_mcangle_it 3.046 r_scbond_it 2.691 r_scbond_other 2.69 r_mcbond_it 2.036 r_mcbond_other 2.014 r_angle_refined_deg 1.804 r_angle_other_deg 1.461 r_nbd_refined 0.246 r_nbd_other 0.242 r_symmetry_xyhbond_nbd_refined 0.204 r_metal_ion_refined 0.203 r_symmetry_nbd_other 0.187 r_xyhbond_nbd_refined 0.175 r_nbtor_refined 0.173 r_symmetry_nbd_refined 0.169 r_chiral_restr 0.087 r_symmetry_nbtor_other 0.083 r_bond_refined_d 0.015 r_gen_planes_refined 0.01 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1379 Nucleic Acid Atoms Solvent Atoms 72 Heterogen Atoms 21
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing