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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
20% 2-propanol
Crystal Properties Matthews coefficient Solvent content 2.24 45.15
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.283 α = 97.08 b = 58.403 β = 91.46 c = 73.882 γ = 105.59
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 1.84 56.1 95.4 0.999 5.2 1.8 76929
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 1.84 1.94 0.423
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 1.89 56.1 67865 3668 96.03 0.20967 0.20768 0.2136 0.24616 0.2469 RANDOM 45.067
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] 0.56 2.39 -0.53 0.36 0.41 -2.28
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.49 r_dihedral_angle_4_deg 13.186 r_dihedral_angle_3_deg 12.387 r_long_range_B_other 8.497 r_long_range_B_refined 8.494 r_scangle_other 6.48 r_dihedral_angle_1_deg 5.362 r_mcangle_it 5.138 r_mcangle_other 5.138 r_scbond_it 4.348
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.49 r_dihedral_angle_4_deg 13.186 r_dihedral_angle_3_deg 12.387 r_long_range_B_other 8.497 r_long_range_B_refined 8.494 r_scangle_other 6.48 r_dihedral_angle_1_deg 5.362 r_mcangle_it 5.138 r_mcangle_other 5.138 r_scbond_it 4.348 r_scbond_other 4.348 r_mcbond_it 3.777 r_mcbond_other 3.777 r_angle_refined_deg 1.055 r_angle_other_deg 0.989 r_chiral_restr 0.059 r_bond_refined_d 0.006 r_gen_planes_refined 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7322 Nucleic Acid Atoms Solvent Atoms 271 Heterogen Atoms 76
Software Software Software Name Purpose REFMAC refinement xia2 data reduction xia2 data scaling PHASER phasing