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Mutant L39Y of recombinant bovine beta-lactoglobulin in complex with pramocaine
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1BSY
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 293 2.4 M ammonium sulfate in 0.5 M Tris-HCl, pH 8.5
Crystal Properties Matthews coefficient Solvent content 2.48 50.38
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 53.321 α = 90 b = 53.321 β = 90 c = 110.703 γ = 120
Symmetry Space Group P 32 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 CCD AGILENT ATLAS CCD 2018-10-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SEALED TUBE Agilent SuperNova 1.54056
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.5 14.76 98.9 0.111 0.124 0.995 8.1 4.7 6648
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.5 2.61 0.64 0.751 0.723 1.7
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1BSY 2.5 14.76 6620 1013 98.541 0.215 0.2045 0.2117 0.2758 0.2799 38.846
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] 0.544 0.272 0.544 -1.763
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.848 r_dihedral_angle_3_deg 16.86 r_lrange_it 8.12 r_lrange_other 8.098 r_dihedral_angle_1_deg 7.179 r_dihedral_angle_4_deg 6.541 r_scangle_it 5.403 r_scangle_other 5.356 r_mcangle_it 4.213 r_mcangle_other 4.211
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.848 r_dihedral_angle_3_deg 16.86 r_lrange_it 8.12 r_lrange_other 8.098 r_dihedral_angle_1_deg 7.179 r_dihedral_angle_4_deg 6.541 r_scangle_it 5.403 r_scangle_other 5.356 r_mcangle_it 4.213 r_mcangle_other 4.211 r_scbond_it 3.273 r_scbond_other 3.214 r_mcbond_it 2.648 r_mcbond_other 2.638 r_angle_refined_deg 1.41 r_angle_other_deg 1.13 r_nbd_other 0.262 r_symmetry_xyhbond_nbd_refined 0.214 r_symmetry_nbd_other 0.19 r_xyhbond_nbd_refined 0.182 r_nbd_refined 0.18 r_nbtor_refined 0.156 r_symmetry_nbd_refined 0.127 r_symmetry_nbtor_other 0.079 r_chiral_restr 0.055 r_bond_refined_d 0.007 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1175 Nucleic Acid Atoms Solvent Atoms 59 Heterogen Atoms 27
Software Software Software Name Purpose REFMAC refinement CrysalisPro data reduction Aimless data scaling PHASER phasing