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Crystal structure of MurE from E.coli in complex with Z275151340
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 2.28 45.98
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.517 α = 96.93 b = 58.546 β = 91.45 c = 74.194 γ = 104.74
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 2.12 47.79 96.3 0.991 3.2 1.8 51879
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 2.12 2.23 0.387
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 2.12 47.79 49220 2659 96.27 0.22673 0.22495 0.2291 0.25929 0.2647 RANDOM 47.238
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] -0.52 2.1 -0.5 0.94 1.39 -1.95
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.99 r_dihedral_angle_4_deg 14.139 r_dihedral_angle_3_deg 14.006 r_dihedral_angle_1_deg 5.086 r_long_range_B_refined 4.738 r_long_range_B_other 4.703 r_scangle_other 2.746 r_mcangle_it 2.585 r_mcangle_other 2.585 r_scbond_it 1.596
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.99 r_dihedral_angle_4_deg 14.139 r_dihedral_angle_3_deg 14.006 r_dihedral_angle_1_deg 5.086 r_long_range_B_refined 4.738 r_long_range_B_other 4.703 r_scangle_other 2.746 r_mcangle_it 2.585 r_mcangle_other 2.585 r_scbond_it 1.596 r_scbond_other 1.596 r_mcbond_it 1.509 r_mcbond_other 1.509 r_angle_refined_deg 1.027 r_angle_other_deg 0.947 r_chiral_restr 0.052 r_bond_refined_d 0.005 r_gen_planes_refined 0.002 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7208 Nucleic Acid Atoms Solvent Atoms 267 Heterogen Atoms 34
Software Software Software Name Purpose REFMAC refinement xia2 data reduction xia2 data scaling PHASER phasing