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Crystal structure of PltF trapped with PltL using a proline adenosine vinylsulfonamide inhibitor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3E7W
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.73 296 0.1 M malonic acid pH 5.73, 3.18 M sodium formate
Crystal Properties Matthews coefficient Solvent content 4.09 69.93
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 170.55 α = 90 b = 170.55 β = 90 c = 64.9 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 110 PIXEL DECTRIS PILATUS3 S 6M mirror 2018-12-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.3.1 1.11587 ALS 8.3.1
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 2.14 85.42 99.2 0.2803 0.998 9.73 10.03 59600 59.78
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.14 2.19 90.5 0.0817 0.31 8.48
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 3E7W 2.14 85.42 55991 2860 98.89 0.2165 0.2142 0.2183 0.2601 0.2616 RANDOM 58.52
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] -0.06 -0.03 -0.06 0.19
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.059 r_dihedral_angle_4_deg 21.014 r_dihedral_angle_3_deg 17.145 r_dihedral_angle_1_deg 7.158 r_angle_refined_deg 1.692 r_angle_other_deg 1.289 r_chiral_restr 0.086 r_bond_refined_d 0.009 r_gen_planes_refined 0.008 r_bond_other_d 0.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.059 r_dihedral_angle_4_deg 21.014 r_dihedral_angle_3_deg 17.145 r_dihedral_angle_1_deg 7.158 r_angle_refined_deg 1.692 r_angle_other_deg 1.289 r_chiral_restr 0.086 r_bond_refined_d 0.009 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4337 Nucleic Acid Atoms Solvent Atoms 104 Heterogen Atoms 111
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling MOLREP phasing