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Crystal structure of the mutant bacteriorhodopsin pressurized with argon
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4XXJ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 LIPIDIC CUBIC PHASE 293 3.0 M Ammonium Sulfate,0.1 M Sodium
Acetate, pH 4.6
Crystal Properties Matthews coefficient Solvent content 2.16 43.06
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 115.657 α = 90 b = 119.245 β = 90 c = 36.393 γ = 90
Symmetry Space Group C 2 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 100 PIXEL DECTRIS PILATUS 6M 2018-09-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 0.97241 ESRF ID23-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rrim 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 1.65 100 99 0.05 0.999 16.29 3.1 57738
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.65 1.7 99.4 1.769 0.34 0.92 3.1
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 4XXJ 1.65 83.02 29182 1569 99.62 0.16452 0.16232 0.20522 0.2093 RANDOM 27.514
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] -0.08 -0.67 0.75
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.406 r_dihedral_angle_4_deg 17.897 r_dihedral_angle_3_deg 12.033 r_long_range_B_other 7.134 r_long_range_B_refined 7.132 r_scangle_other 5.095 r_dihedral_angle_1_deg 5.014 r_scbond_it 3.639 r_scbond_other 3.511 r_mcangle_other 3.046
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.406 r_dihedral_angle_4_deg 17.897 r_dihedral_angle_3_deg 12.033 r_long_range_B_other 7.134 r_long_range_B_refined 7.132 r_scangle_other 5.095 r_dihedral_angle_1_deg 5.014 r_scbond_it 3.639 r_scbond_other 3.511 r_mcangle_other 3.046 r_mcangle_it 3.041 r_mcbond_it 2.077 r_mcbond_other 2.048 r_angle_refined_deg 1.81 r_angle_other_deg 1.421 r_chiral_restr 0.107 r_bond_refined_d 0.013 r_gen_planes_refined 0.01 r_bond_other_d 0.002 r_gen_planes_other 0.002 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1737 Nucleic Acid Atoms Solvent Atoms 119 Heterogen Atoms 296
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling MOLREP phasing