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Crystal structure of a HaloTag-based calcium indicator, HaloCaMP V2, bound to JF635
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5UY1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 30% (v/v) PEG 200, 100 mM MES/ Sodium hydroxide pH 6.0, and 5% (w/v) PEG 3000
Crystal Properties Matthews coefficient Solvent content 3.08 60.08
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 92.56 α = 90 b = 60.662 β = 91.02 c = 122.6 γ = 90
Symmetry Space Group P 1 2 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 CCD ADSC QUANTUM 315 2018-03-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.1 0.9774 ALS 8.2.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) Rrim I (All) Rpim I (All) 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 2 122.58 98.6 0.096 0.109 0.051 6.5 4.6 90798 90798
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Rrim I (All) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2 2.11 97.6 1.347 1.347 1.523 0.696 0.5 4.4
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 (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 5UY1 2 122.58 86312 4438 98.25 0.1877 0.1857 0.1932 0.2255 0.2281 RANDOM 52.533
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] -1.16 0.09 -0.75 1.9
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.783 r_dihedral_angle_4_deg 21.358 r_dihedral_angle_3_deg 16.937 r_dihedral_angle_1_deg 7.406 r_angle_refined_deg 2.44 r_angle_other_deg 1.285 r_chiral_restr 0.163 r_bond_refined_d 0.026 r_gen_planes_refined 0.014 r_bond_other_d 0.002
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.783 r_dihedral_angle_4_deg 21.358 r_dihedral_angle_3_deg 16.937 r_dihedral_angle_1_deg 7.406 r_angle_refined_deg 2.44 r_angle_other_deg 1.285 r_chiral_restr 0.163 r_bond_refined_d 0.026 r_gen_planes_refined 0.014 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7420 Nucleic Acid Atoms Solvent Atoms 203 Heterogen Atoms 110
Software Software Software Name Purpose REFMAC refinement SCALA data scaling PHASER phasing PDB_EXTRACT data extraction iMOSFLM data reduction