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Crystal structure of Apo PSD from E. coli (1.90 A)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.3 293 0.1 M BIS-TRIS pH 6.3, 28% w/v PEGMME 2000, 5% w/v 1.6-Hexanediol
Crystal Properties Matthews coefficient Solvent content 3.43 64.15
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 77.443 α = 90 b = 79.817 β = 90 c = 147.089 γ = 90
Symmetry Space Group P 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 CCD ADSC QUANTUM 270 2018-11-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PAL/PLS BEAMLINE 7A (6B, 6C1) 0.98011 PAL/PLS 7A (6B, 6C1)
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 1.9 49.03 98.8 0.137 0.142 0.037 0.999 14.6 14.1 71625
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 1.9 1.94 86.8 2.802 2.933 0.845 0.369 1 11.4
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 (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD THROUGHOUT 1.9 41.81 67965 3593 98.63 0.2131 0.2115 0.2433 0.2167 RANDOM 39.495
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] -1.11 2.23 -1.12
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.969 r_dihedral_angle_4_deg 14.309 r_dihedral_angle_3_deg 14.152 r_dihedral_angle_1_deg 7.016 r_angle_refined_deg 1.579 r_angle_other_deg 1.291 r_chiral_restr 0.072 r_bond_refined_d 0.01 r_gen_planes_refined 0.007 r_bond_other_d 0.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.969 r_dihedral_angle_4_deg 14.309 r_dihedral_angle_3_deg 14.152 r_dihedral_angle_1_deg 7.016 r_angle_refined_deg 1.579 r_angle_other_deg 1.291 r_chiral_restr 0.072 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 4445 Nucleic Acid Atoms Solvent Atoms 179 Heterogen Atoms 88
Software Software Software Name Purpose MxDC data collection XDS data reduction Aimless data scaling MOLREP phasing REFMAC refinement Coot model building PDB_EXTRACT data extraction