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Crystal structure of H. walsbyi bacteriorhodopsin
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 LIPID CUBIC PHASE 5.5 293 sodium citrate, NaCl, PEG 400, pH 5.5, LIPID CUBIC PHASE, temperature 293.0K
Crystal Properties Matthews coefficient Solvent content 2.04 39.67
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 106.697 α = 90 b = 61.634 β = 116.17 c = 119.512 γ = 90
Symmetry Space Group C 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 110 CCD RAYONIX MX300HE 2013-08-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSRRC BEAMLINE BL15A1 1.0000 NSRRC BL15A1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) 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 1.85 107.117 0.063 0.043 17.7 74113
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.85 1.89
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 1.85 26.73 44345 2354 78.78 0.19922 0.19722 0.2068 0.23738 0.2463 RANDOM 22.332
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] 0.29 -0.35 0.88 -0.67
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.046 r_dihedral_angle_4_deg 15.049 r_dihedral_angle_3_deg 14.502 r_dihedral_angle_1_deg 5.481 r_angle_refined_deg 1.848 r_angle_other_deg 0.992 r_chiral_restr 0.126 r_bond_refined_d 0.019 r_gen_planes_refined 0.01 r_gen_planes_other 0.003
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.046 r_dihedral_angle_4_deg 15.049 r_dihedral_angle_3_deg 14.502 r_dihedral_angle_1_deg 5.481 r_angle_refined_deg 1.848 r_angle_other_deg 0.992 r_chiral_restr 0.126 r_bond_refined_d 0.019 r_gen_planes_refined 0.01 r_gen_planes_other 0.003 r_bond_other_d 0.001 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_mcbond_it r_mcbond_other r_mcangle_it r_mcangle_other r_scbond_it r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5277 Nucleic Acid Atoms Solvent Atoms 718 Heterogen Atoms 282
Software Software Software Name Purpose HKL-2000 data collection PHASER phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling