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Bacteriorhodopsin ground state structure collected in cryo conditions from crystals obtained in LCP with PEG as a precipitant.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2NTU
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 LIPIDIC CUBIC PHASE 5.6 294 27% PEG2000, 100 mM phosphate buffer pH 5.6
Crystal Properties Matthews coefficient Solvent content 2.15 42.71
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 60.525 α = 90 b = 60.525 β = 90 c = 101.48 γ = 120
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 PSI PILATUS 6M 2014-02-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 1.0 SLS X06SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 1.9 46.57 100 0.095 0.026 1 17.9 14.1 16647 16643 33.4
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.9 1.94 100 1.867 0.496 0.548 1.8 14.3 1072
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 2NTU 1.9 52.42 15773 841 99.98 0.1737 0.1715 0.1802 0.2143 0.2238 RANDOM 36.741
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] -1.03 -0.51 -1.03 3.33
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.888 r_dihedral_angle_3_deg 12.706 r_dihedral_angle_4_deg 11.915 r_dihedral_angle_1_deg 4.646 r_mcangle_it 1.92 r_mcbond_other 1.349 r_mcbond_it 1.348 r_angle_refined_deg 1.223 r_angle_other_deg 0.768 r_chiral_restr 0.072
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.888 r_dihedral_angle_3_deg 12.706 r_dihedral_angle_4_deg 11.915 r_dihedral_angle_1_deg 4.646 r_mcangle_it 1.92 r_mcbond_other 1.349 r_mcbond_it 1.348 r_angle_refined_deg 1.223 r_angle_other_deg 0.768 r_chiral_restr 0.072 r_bond_refined_d 0.009 r_gen_planes_refined 0.009 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1710 Nucleic Acid Atoms Solvent Atoms 30 Heterogen Atoms 124
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PDB_EXTRACT data extraction PHASER phasing