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Beta-lactoglobulin mutant FAW (I56F/L39A/M107W) in complex with desipramine (FAW-DSM#2)
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 2.40 M (NH4)2SO4, 0.5 M Tris-HCl pH 8.5
Crystal Properties Matthews coefficient Solvent content 2.41 48.88
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 55.814 α = 90 b = 70.517 β = 90 c = 178.797 γ = 90
Symmetry Space Group I 21 21 21
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 PILATUS3 6M 2019-04-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 0.91840 BESSY 14.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.688 45.519 99.6 0.072 1 19.43 12.94 39985
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 1.69 1.79 1.68 0.857
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 1.69 45.519 39980 1000 99.577 0.19 0.1892 0.2032 0.2355 0.2584 43.721
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] -2.83 5.119 -2.29
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.273 r_scangle_it 17.402 r_lrange_other 17.156 r_lrange_it 17.112 r_scangle_other 16.499 r_dihedral_angle_3_deg 15.266 r_scbond_it 14.424 r_scbond_other 13.793 r_mcangle_other 8.988 r_mcangle_it 8.977
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.273 r_scangle_it 17.402 r_lrange_other 17.156 r_lrange_it 17.112 r_scangle_other 16.499 r_dihedral_angle_3_deg 15.266 r_scbond_it 14.424 r_scbond_other 13.793 r_mcangle_other 8.988 r_mcangle_it 8.977 r_dihedral_angle_4_deg 8.785 r_mcbond_it 8.486 r_mcbond_other 8.391 r_dihedral_angle_1_deg 6.69 r_angle_refined_deg 1.684 r_angle_other_deg 1.492 r_nbd_other 0.207 r_symmetry_nbd_other 0.199 r_nbd_refined 0.194 r_symmetry_nbd_refined 0.194 r_xyhbond_nbd_refined 0.175 r_nbtor_refined 0.169 r_ncsr_local_group_1 0.158 r_symmetry_xyhbond_nbd_refined 0.152 r_chiral_restr 0.083 r_symmetry_nbtor_other 0.083 r_bond_refined_d 0.012 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 2448 Nucleic Acid Atoms Solvent Atoms 168 Heterogen Atoms 80
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling PHASER phasing