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Crystal structure of MurE from E.coli in complex with Z57299368
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
13% PEG4K
21% 2-propanol
Crystal Properties Matthews coefficient Solvent content 2.26 45.64
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.268 α = 96.83 b = 58.147 β = 91.42 c = 74.463 γ = 104.56
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 2020-02-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.9762 Diamond I03
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 2.07 73.82 93 0.998 6.5 2 53195
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 2.07 2.18 0.447
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 7B53 2.08 73.82 51662 2783 96.69 0.20886 0.20698 0.24362 0.2303 RANDOM 53.125
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] 0.37 -0.62 -0.18 -0.51 3.53 -0.51
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.239 r_dihedral_angle_4_deg 15.809 r_dihedral_angle_3_deg 15.128 r_dihedral_angle_1_deg 6.09 r_long_range_B_refined 5.688 r_long_range_B_other 5.682 r_scangle_other 3.593 r_mcangle_it 3.083 r_mcangle_other 3.082 r_scbond_it 2.187
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.239 r_dihedral_angle_4_deg 15.809 r_dihedral_angle_3_deg 15.128 r_dihedral_angle_1_deg 6.09 r_long_range_B_refined 5.688 r_long_range_B_other 5.682 r_scangle_other 3.593 r_mcangle_it 3.083 r_mcangle_other 3.082 r_scbond_it 2.187 r_scbond_other 2.187 r_mcbond_it 1.907 r_mcbond_other 1.906 r_angle_refined_deg 1.327 r_angle_other_deg 1.063 r_chiral_restr 0.076 r_bond_refined_d 0.009 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 7293 Nucleic Acid Atoms Solvent Atoms 153 Heterogen Atoms 48
Software Software Software Name Purpose REFMAC refinement xia2 data reduction xia2 data scaling PHASER phasing