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Crystal structure of the genetically-encoded FGCaMP calcium indicator in its calcium-bound state
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3EK7
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 2.5 M Ammonium sulfate; 10%DMSO
Crystal Properties Matthews coefficient Solvent content 3.4 63.87
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 163.561 α = 90 b = 163.561 β = 90 c = 143.06 γ = 90
Symmetry Space Group P 43 21 2
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 2017-06-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL41XU 1.0 SPring-8 BL41XU
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 3.18 89.94 100 0.098 0.106 0.04 0.985 13.6 7 33268
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 3.18 3.34 100 0.876 0.947 0.353 0.726 7
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 (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 3EK7 3.18 89.94 31561 1653 99.98 0.2825 0.2791 0.2804 0.3483 0.3434 RANDOM 79.989
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] 0.02 0.02 -0.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.64 r_dihedral_angle_4_deg 21.382 r_dihedral_angle_3_deg 21.162 r_dihedral_angle_1_deg 8.668 r_angle_refined_deg 1.686 r_angle_other_deg 1.22 r_chiral_restr 0.071 r_bond_refined_d 0.007 r_gen_planes_refined 0.006 r_gen_planes_other 0.002
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.64 r_dihedral_angle_4_deg 21.382 r_dihedral_angle_3_deg 21.162 r_dihedral_angle_1_deg 8.668 r_angle_refined_deg 1.686 r_angle_other_deg 1.22 r_chiral_restr 0.071 r_bond_refined_d 0.007 r_gen_planes_refined 0.006 r_gen_planes_other 0.002 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6410 Nucleic Acid Atoms Solvent Atoms 3 Heterogen Atoms 2440
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction Aimless data scaling MOLREP phasing PDB_EXTRACT data extraction