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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
17% PEG4K
22% 2-propanol
Crystal Properties Matthews coefficient Solvent content 2.24 45.12
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.15 α = 96.93 b = 58.24 β = 91.27 c = 74.03 γ = 105.2
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 1.57 73.38 94.9 0.997 7.5 1.7 124106
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 1.57 1.65 0.427
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 1.65 56.09 102513 5464 96.59 0.19495 0.19323 0.2026 0.22694 0.2324 RANDOM 35.71
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] -0.4 0.99 -0.13 0.6 0.77 -1.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.388 r_dihedral_angle_4_deg 17.47 r_dihedral_angle_3_deg 12.611 r_long_range_B_refined 7.225 r_long_range_B_other 7.217 r_dihedral_angle_1_deg 6.134 r_scangle_other 5.796 r_scbond_it 3.983 r_scbond_other 3.983 r_mcangle_it 3.937
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.388 r_dihedral_angle_4_deg 17.47 r_dihedral_angle_3_deg 12.611 r_long_range_B_refined 7.225 r_long_range_B_other 7.217 r_dihedral_angle_1_deg 6.134 r_scangle_other 5.796 r_scbond_it 3.983 r_scbond_other 3.983 r_mcangle_it 3.937 r_mcangle_other 3.936 r_mcbond_it 2.909 r_mcbond_other 2.909 r_angle_refined_deg 1.662 r_angle_other_deg 1.221 r_chiral_restr 0.109 r_bond_refined_d 0.016 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 7236 Nucleic Acid Atoms Solvent Atoms 354 Heterogen Atoms 106
Software Software Software Name Purpose REFMAC refinement xia2 data reduction xia2 data scaling PHASER phasing