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H. walsbyi bacteriorhodopsin mutant - W94F
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4QI1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 LIPIDIC CUBIC PHASE 5.5 293 50mM Sodium acetate, 50mM NaCl, 15% PEG 400
Crystal Properties Matthews coefficient Solvent content 2.82 56.45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 49.499 α = 90 b = 126.747 β = 111.442 c = 55.037 γ = 90
Symmetry Space Group P 1 21 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 PIXEL DECTRIS EIGER2 X 16M 2024-05-31 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSRRC BEAMLINE TPS 07A 0.9762 NSRRC TPS 07A
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 2.5 28.581 99.61 0.097 14.22 3.1 21677 41.15
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 2.5 2.64 99 0.724 0.73 2.14
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 (All) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2.503 26.96 21655 1085 99.508 0.215 0.2127 0.2567 0.2367 RANDOM 44.335
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] 0.025 -0.014 -0.008 -0.005
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 14.875 r_dihedral_angle_3_deg 14.258 r_lrange_it 8.412 r_dihedral_angle_2_deg 6.916 r_scangle_it 6.855 r_dihedral_angle_1_deg 5.072 r_mcangle_it 4.637 r_scbond_it 4.567 r_mcbond_it 3.188 r_angle_refined_deg 1.4
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 14.875 r_dihedral_angle_3_deg 14.258 r_lrange_it 8.412 r_dihedral_angle_2_deg 6.916 r_scangle_it 6.855 r_dihedral_angle_1_deg 5.072 r_mcangle_it 4.637 r_scbond_it 4.567 r_mcbond_it 3.188 r_angle_refined_deg 1.4 r_nbtor_refined 0.311 r_symmetry_nbd_refined 0.236 r_nbd_refined 0.217 r_xyhbond_nbd_refined 0.136 r_symmetry_xyhbond_nbd_refined 0.13 r_chiral_restr 0.116 r_ncsr_local_group_1 0.043 r_bond_refined_d 0.006 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3520 Nucleic Acid Atoms Solvent Atoms 26 Heterogen Atoms 191
Software Software Software Name Purpose REFMAC refinement XDS data scaling XDS data reduction PHASER phasing