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Crystal structure of the viral rhodopsins chimera O1O2
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6SQG
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 LIPIDIC CUBIC PHASE 4.6 293 1.8 M Na2HPO4/KH2PO4 (pH 4.6)
Crystal Properties Matthews coefficient Solvent content 2.38 48.36
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.405 α = 90 b = 103.396 β = 90.32 c = 111.381 γ = 90
Symmetry Space Group I 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 100 PIXEL DECTRIS EIGER X 16M 2019-03-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 0.9780 SLS X06SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) 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 1.96 41.33 99.5 0.051 0.061 0.032 0.999 12.2 3.5 36098
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.96 2 95.4 1.191 1.407 0.742 0.508 3.4
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 6sqg 1.96 20 34293 1776 99.35 0.2041 0.202 0.2139 0.2458 0.2553 RANDOM 41.622
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] -0.96 2.21 -1.17 2.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.768 r_dihedral_angle_4_deg 21.803 r_dihedral_angle_3_deg 16.555 r_dihedral_angle_1_deg 4.881 r_angle_other_deg 1.157 r_angle_refined_deg 1.053 r_chiral_restr 0.047 r_gen_planes_refined 0.003 r_bond_refined_d 0.002 r_bond_other_d 0.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.768 r_dihedral_angle_4_deg 21.803 r_dihedral_angle_3_deg 16.555 r_dihedral_angle_1_deg 4.881 r_angle_other_deg 1.157 r_angle_refined_deg 1.053 r_chiral_restr 0.047 r_gen_planes_refined 0.003 r_bond_refined_d 0.002 r_bond_other_d 0.001 r_gen_planes_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3777 Nucleic Acid Atoms Solvent Atoms 52 Heterogen Atoms 32
Software Software Software Name Purpose Aimless data scaling REFMAC refinement PDB_EXTRACT data extraction XDS data reduction MOLREP phasing