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Drosophila PGRP-LB wild-type
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1OHT
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 293 0.1M HEPES pH7.0, 30% v/v Jeffamine ED-2003
Crystal Properties Matthews coefficient Solvent content 1.67 26.24
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 39.869 α = 90 b = 70.546 β = 90 c = 112.828 γ = 90
Symmetry Space Group C 2 2 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 2018-09-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I24 0.969 Diamond I24
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 1.9 112.83 99.8 0.133 0.153 0.073 0.993 8.5 7.9 12942
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 1.197 1.394 0.699 0.562 7.2
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 1OHT 1.9 56.478 12883 680 99.667 0.182 0.1799 0.19 0.2128 0.2196 27.154
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] -0.309 0.223 0.086
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.274 r_dihedral_angle_4_deg 16.653 r_dihedral_angle_3_deg 13.199 r_dihedral_angle_1_deg 6.912 r_lrange_it 5.566 r_lrange_other 5.562 r_scangle_it 4.431 r_scangle_other 4.403 r_mcangle_other 3.125 r_mcangle_it 3.116
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.274 r_dihedral_angle_4_deg 16.653 r_dihedral_angle_3_deg 13.199 r_dihedral_angle_1_deg 6.912 r_lrange_it 5.566 r_lrange_other 5.562 r_scangle_it 4.431 r_scangle_other 4.403 r_mcangle_other 3.125 r_mcangle_it 3.116 r_scbond_it 2.949 r_scbond_other 2.914 r_mcbond_it 2.224 r_mcbond_other 2.207 r_angle_refined_deg 1.597 r_angle_other_deg 1.368 r_symmetry_nbd_refined 0.239 r_nbd_refined 0.203 r_nbd_other 0.203 r_symmetry_nbd_other 0.185 r_nbtor_refined 0.173 r_xyhbond_nbd_refined 0.141 r_symmetry_xyhbond_nbd_refined 0.119 r_symmetry_nbtor_other 0.077 r_chiral_restr 0.074 r_metal_ion_refined 0.022 r_bond_refined_d 0.01 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 1334 Nucleic Acid Atoms Solvent Atoms 51 Heterogen Atoms 1
Software Software Software Name Purpose REFMAC refinement REFMAC refinement DIALS data processing Aimless data reduction Coot model building GDA data collection Aimless data scaling PHASER phasing