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Crystal structure of MurE from E.coli in complex with Z57299526
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7B53
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.5 294 0.1M citrate pH 5.5
19% PEG4K
14% 2-propanol
Crystal Properties Matthews coefficient Solvent content 2.24 45.19
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.12 α = 96.99 b = 58.15 β = 91.82 c = 74.252 γ = 104.99
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 S 6M 2018-07-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 0.91587 Diamond I04-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) 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 1.8 73.55 95 0.996 6.2 1.8 82093
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 1.8 1.9 0.46
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 7B53 1.82 56.08 76227 4120 96.27 0.20782 0.20625 0.2144 0.23657 0.2433 RANDOM 41.098
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] -0.34 0.36 -0.09 0.27 0.74 -0.37
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.613 r_dihedral_angle_4_deg 14.405 r_dihedral_angle_3_deg 12.831 r_long_range_B_refined 6.263 r_long_range_B_other 6.246 r_dihedral_angle_1_deg 5.32 r_scangle_other 4.419 r_mcangle_it 3.276 r_mcangle_other 3.276 r_scbond_it 2.809
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.613 r_dihedral_angle_4_deg 14.405 r_dihedral_angle_3_deg 12.831 r_long_range_B_refined 6.263 r_long_range_B_other 6.246 r_dihedral_angle_1_deg 5.32 r_scangle_other 4.419 r_mcangle_it 3.276 r_mcangle_other 3.276 r_scbond_it 2.809 r_scbond_other 2.809 r_mcbond_it 2.226 r_mcbond_other 2.226 r_angle_refined_deg 1.192 r_angle_other_deg 1.042 r_chiral_restr 0.071 r_bond_refined_d 0.007 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7194 Nucleic Acid Atoms Solvent Atoms 287 Heterogen Atoms 20
Software Software Software Name Purpose REFMAC refinement xia2 data reduction xia2 data scaling PHASER phasing