☰ Navigation Tabs
Full length Open-form Sodium Channel NavMs F208L in complex with Cannabidiol (CBD)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5HVX
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 277 0.1M lithium sulphate, 0.1M HEPES, pH 7, and 40% v/v PEG200.
Crystal Properties Matthews coefficient Solvent content 4.9 74.9
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 110.328 α = 90 b = 110.328 β = 90 c = 207.876 γ = 90
Symmetry Space Group I 4 2 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 80 PIXEL DECTRIS PILATUS 6M 2019-09-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X13 0.9797 EMBL/DESY, HAMBURG X13
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) 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 2.3 103.94 100 0.999 17.3 21 29849
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.3 2.38 0.877 1
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 5HVX 2.3 103.94 28706 1452 99.2 0.2479 0.2472 0.245 0.2611 0.2744 RANDOM 110.79
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] -21.6961 -21.6961 43.3922
RMS Deviations Key Refinement Restraint Deviation t_other_torsion 16.32 t_omega_torsion 2.67 t_angle_deg 0.86 t_bond_d 0.008 t_dihedral_angle_d t_trig_c_planes t_gen_planes t_it t_nbd t_improper_torsion
RMS Deviations Key Refinement Restraint Deviation t_other_torsion 16.32 t_omega_torsion 2.67 t_angle_deg 0.86 t_bond_d 0.008 t_dihedral_angle_d t_trig_c_planes t_gen_planes t_it t_nbd t_improper_torsion t_pseud_angle t_chiral_improper_torsion t_sum_occupancies t_utility_distance t_utility_angle t_utility_torsion t_ideal_dist_contact
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1999 Nucleic Acid Atoms Solvent Atoms 66 Heterogen Atoms 57
Software Software Software Name Purpose BUSTER refinement PDB_EXTRACT data extraction XDS data reduction XDS data scaling PHASER phasing