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truncated S. aureus LytM, P212121 crystal form
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1QWY
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.8 294 0.2 M ammonium sulfate, 0.1 M sodium cacodylate, 0.1 M sodium acetate, pH 6.8, VAPOR DIFFUSION, SITTING DROP, temperature 294K
Crystal Properties Matthews coefficient Solvent content 2.3 46
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 32.093 α = 90 b = 78.261 β = 90 c = 102.049 γ = 90
Symmetry Space Group P 21 21 21
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 MARRESEARCH 2004-11-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MPG/DESY, HAMBURG BEAMLINE BW6 1.05 MPG/DESY, HAMBURG BW6
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 1.5 20 99.9 0.068 0.068 6.4 3.5 42130 42130 13.8
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 1.5 1.58 100 0.256 0.256 2.7 3.3 6060
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 (All) 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 1QWY 1.5 19.84 42059 39977 2082 99.95 0.184 0.18241 0.18039 0.184 0.22239 0.2254 RANDOM 10.184
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] 2.04 -0.46 -1.58
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 7.232 r_angle_other_deg 4.003 r_scangle_it 3.884 r_scbond_it 2.616 r_angle_refined_deg 1.703 r_mcangle_it 1.668 r_mcbond_it 1.075 r_symmetry_vdw_other 0.332 r_nbd_other 0.296 r_symmetry_hbond_refined 0.212
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 7.232 r_angle_other_deg 4.003 r_scangle_it 3.884 r_scbond_it 2.616 r_angle_refined_deg 1.703 r_mcangle_it 1.668 r_mcbond_it 1.075 r_symmetry_vdw_other 0.332 r_nbd_other 0.296 r_symmetry_hbond_refined 0.212 r_nbd_refined 0.193 r_xyhbond_nbd_refined 0.174 r_chiral_restr 0.115 r_nbtor_other 0.114 r_metal_ion_refined 0.094 r_symmetry_vdw_refined 0.082 r_bond_refined_d 0.017 r_gen_planes_other 0.015 r_gen_planes_refined 0.01 r_bond_other_d
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1980 Nucleic Acid Atoms Solvent Atoms 385 Heterogen Atoms 24
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction CCP4 data scaling MOLREP phasing