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Beta-lactoglobulin mutant FAF (I56F/L39A/M107F) in complex with desipramine (FAF-DSM)
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, desipramine
Crystal Properties Matthews coefficient Solvent content 2.52 51.2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 55.821 α = 90 b = 73.34 β = 90 c = 179.701 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 PILATUS 6M 2019-06-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PETRA III, EMBL c/o DESY BEAMLINE P13 (MX1) 0.97625 PETRA III, EMBL c/o DESY P13 (MX1)
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 1.7 46.38 99.8 0.069 1 17.97 12.9 41144
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 1.7 1.8 1.351 0.903 1.88
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 1.7 46.38 41069 1042 99.934 0.204 0.2032 0.2427 0.2328 0.262 44.931
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] -4.806 7.96 -3.154
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.445 r_dihedral_angle_3_deg 14.151 r_lrange_it 7.496 r_lrange_other 7.483 r_dihedral_angle_1_deg 7.423 r_dihedral_angle_4_deg 6.053 r_scangle_other 5.565 r_scangle_it 5.555 r_mcangle_other 4.029 r_mcangle_it 4.028
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.445 r_dihedral_angle_3_deg 14.151 r_lrange_it 7.496 r_lrange_other 7.483 r_dihedral_angle_1_deg 7.423 r_dihedral_angle_4_deg 6.053 r_scangle_other 5.565 r_scangle_it 5.555 r_mcangle_other 4.029 r_mcangle_it 4.028 r_scbond_it 3.412 r_scbond_other 3.411 r_mcbond_it 2.534 r_mcbond_other 2.529 r_angle_refined_deg 1.599 r_angle_other_deg 1.384 r_symmetry_xyhbond_nbd_refined 0.212 r_xyhbond_nbd_refined 0.2 r_nbd_other 0.2 r_symmetry_nbd_other 0.19 r_nbd_refined 0.177 r_nbtor_refined 0.162 r_ncsr_local_group_1 0.158 r_symmetry_nbd_refined 0.153 r_symmetry_nbtor_other 0.079 r_chiral_restr 0.075 r_bond_refined_d 0.01 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2493 Nucleic Acid Atoms Solvent Atoms 146 Heterogen Atoms 101
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling PHASER phasing