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Voltage-gated sodium channel NaV1.4 IQ domain in complex with Ca2+/Calmodulin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4DJC
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 277 0.1 M MES pH 6.0 and 55 % (v/v) isopropanol
Crystal Properties Matthews coefficient Solvent content 1.95 36.88
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.58 α = 90 b = 24.433 β = 112.63 c = 60.72 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 MARMOSAIC 300 mm CCD 2015-12-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-B 1.0332 APS 23-ID-B
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rrim 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 1.8 50 98.3 0.093 9.66 3.81 14964
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rrim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.8 1.91 91.4 0.744 1.68 3.37
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 4djc 1.9 33.07 12292 647 99.86 0.2159 0.2136 0.2191 0.2603 0.2577 RANDOM 36.906
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] 1.77 0.77 -1.19 -0.91
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.269 r_dihedral_angle_3_deg 14.942 r_dihedral_angle_4_deg 7.256 r_dihedral_angle_1_deg 5.564 r_angle_refined_deg 1.24 r_angle_other_deg 0.972 r_chiral_restr 0.067 r_bond_refined_d 0.01 r_gen_planes_refined 0.006 r_gen_planes_other 0.002
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.269 r_dihedral_angle_3_deg 14.942 r_dihedral_angle_4_deg 7.256 r_dihedral_angle_1_deg 5.564 r_angle_refined_deg 1.24 r_angle_other_deg 0.972 r_chiral_restr 0.067 r_bond_refined_d 0.01 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 1204 Nucleic Acid Atoms Solvent Atoms 45 Heterogen Atoms 4
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction XDS data reduction XDS data scaling PHASER phasing