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The 1.6 A Crystal Structure of MshC: The Rate Limiting Enzyme in the Mycothiol Biosynthetic Pathway
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model Other de novo
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 under oil 7.9 291 0.1 M HEPES pH 7.9, 2 M NH4SO4, 2% PEG400, under oil, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.99 58.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 123.521 α = 90 b = 123.521 β = 90 c = 186.026 γ = 120
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD ADSC QUANTUM 210 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X12C 0.9486, 1.1 NSLS X12C
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) 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 1.6 37.09 99.8 0.062 0.057 37 4 131763
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.6 1.64 98.3 0.349 0.403 3.1 3.7
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 SAD and Molecular Replacement THROUGHOUT de novo 1.6 37.09 138721 131736 6973 99.74 0.18594 0.18485 0.1842 0.20668 0.2066 RANDOM 24.4
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.902 r_dihedral_angle_4_deg 17.821 r_dihedral_angle_3_deg 12.92 r_dihedral_angle_1_deg 11.396 r_scangle_it 3.215 r_scbond_it 2.072 r_angle_refined_deg 1.656 r_mcangle_it 1.344 r_mcbond_it 0.825 r_nbtor_refined 0.303
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.902 r_dihedral_angle_4_deg 17.821 r_dihedral_angle_3_deg 12.92 r_dihedral_angle_1_deg 11.396 r_scangle_it 3.215 r_scbond_it 2.072 r_angle_refined_deg 1.656 r_mcangle_it 1.344 r_mcbond_it 0.825 r_nbtor_refined 0.303 r_chiral_restr 0.298 r_symmetry_hbond_refined 0.207 r_nbd_refined 0.2 r_symmetry_vdw_refined 0.162 r_xyhbond_nbd_refined 0.116 r_metal_ion_refined 0.021 r_bond_refined_d 0.011 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6218 Nucleic Acid Atoms Solvent Atoms 868 Heterogen Atoms 121
Software Software Software Name Purpose REFMAC refinement HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling ARP/wARP model building