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Crystal structure of MurE from E.coli in complex with Z1269139261
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
16% 2-propanol
Crystal Properties Matthews coefficient Solvent content 2.24 45.17
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.249 α = 97.27 b = 58.382 β = 91.53 c = 74.027 γ = 105.61
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 2018-07-05 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 1.91 73.28 95.4 0.999 8.8 1.8 68830
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 1.91 2.01 0.436
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 1.91 73.28 65319 3511 95.39 0.21741 0.21608 0.2199 0.24193 0.2444 RANDOM 51.58
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] 0.14 1.12 -0.22 0.33 1.02 -1.4
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.243 r_dihedral_angle_4_deg 15.649 r_dihedral_angle_3_deg 12.77 r_long_range_B_refined 5.797 r_long_range_B_other 5.795 r_dihedral_angle_1_deg 5.407 r_scangle_other 3.763 r_mcangle_it 3.322 r_mcangle_other 3.31 r_scbond_it 2.345
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.243 r_dihedral_angle_4_deg 15.649 r_dihedral_angle_3_deg 12.77 r_long_range_B_refined 5.797 r_long_range_B_other 5.795 r_dihedral_angle_1_deg 5.407 r_scangle_other 3.763 r_mcangle_it 3.322 r_mcangle_other 3.31 r_scbond_it 2.345 r_scbond_other 2.345 r_mcbond_it 2.084 r_mcbond_other 2.084 r_angle_refined_deg 1.038 r_angle_other_deg 0.979 r_chiral_restr 0.057 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 7284 Nucleic Acid Atoms Solvent Atoms 206 Heterogen Atoms 58
Software Software Software Name Purpose REFMAC refinement xia2 data reduction xia2 data scaling PHASER phasing