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Crystal Structure of the Orn_Lys_Arg decarboxylase family protein SAR0482 from Methicillin-resistant Staphylococcus aureus
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8 20% PEG4000, 0.1 M TRIS-CL, PH8.0, 0.32 M MGCL2, 0.8% ETHYLENE GLYCOL. THE CRYSTAL WAS SOAKED WITH 20 MM SAMARIUM ACETATE AND 5MM PLP. THE CRYSTALS WERE CRYOPROTECTED WITH 22% PEG4000, 0.1M TRIS-CL, PH8.0, 0.3 M MGCL2, 2.0% ETHYLENE GLYCOL, 19% PEG400 DILUTED WITH A 50MM PLP SOLUTION 1:10 (FINAL CONCENTRATIONS ABOUT 17% PEG400 AND 5MM PLP)
Crystal Properties Matthews coefficient Solvent content 2.1 43
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 50.677 α = 90 b = 137.283 β = 109.64 c = 62.258 γ = 90
Symmetry Space Group P 1 21 1
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 CCD MIRRORS 2007-11-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-3 ESRF ID14-3
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 2 29.17 99.2 0.1 10.6 3.1 50798
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2 2.05 98.7 0.46 2.7 2.9
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 SAD THROUGHOUT NONE 2 29.17 50798 2713 99.16 0.23132 0.22886 0.2368 0.27684 0.2817 RANDOM 9.754
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] -0.02 -0.09 0.11 -0.15
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.348 r_dihedral_angle_3_deg 13.938 r_dihedral_angle_4_deg 7.475 r_dihedral_angle_1_deg 5.65 r_scangle_it 1.609 r_scbond_it 1.164 r_angle_refined_deg 1.125 r_angle_other_deg 0.82 r_mcangle_it 0.626 r_mcbond_it 0.349
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.348 r_dihedral_angle_3_deg 13.938 r_dihedral_angle_4_deg 7.475 r_dihedral_angle_1_deg 5.65 r_scangle_it 1.609 r_scbond_it 1.164 r_angle_refined_deg 1.125 r_angle_other_deg 0.82 r_mcangle_it 0.626 r_mcbond_it 0.349 r_mcbond_other 0.089 r_chiral_restr 0.062 r_bond_refined_d 0.008 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6800 Nucleic Acid Atoms Solvent Atoms 127 Heterogen Atoms 41
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling SHELX phasing