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Crystal Structure of IcaR from Staphylococcus aureus, a member of the tetracycline repressor protein family
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 7 298 PEG3350 20%, 0.2M NH4 Formate, pH 7, VAPOR DIFFUSION, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.36 47.94
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 113.922 α = 90 b = 121.141 β = 90 c = 61.686 γ = 90
Symmetry Space Group P 21 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 110 CCD MARMOSAIC 300 mm CCD 2008-12-05 M SINGLE WAVELENGTH 2 1 x-ray 110 CCD MARMOSAIC 300 mm CCD 2009-02-08 M SINGLE WAVELENGTH 1,2 1
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-D 0.97624 APS 21-ID-D 2 SYNCHROTRON APS BEAMLINE 21-ID-D 0.990 APS 21-ID-D
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 1.9 50 99.3 0.08 7.6 67790 67319 1.6 2.4
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 1.9 1.97 93.7 0.474 2.4 4.3 6284
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 THROUGHOUT 1.9 40.42 67790 67217 3392 98.81 0.184 0.182 0.183 0.228 0.2284 RANDOM 35.916
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] 0.27 0.11 -0.38
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.176 r_dihedral_angle_4_deg 25.252 r_dihedral_angle_3_deg 15.193 r_scangle_it 10.234 r_scbond_it 7.331 r_dihedral_angle_1_deg 5.258 r_mcangle_it 4.802 r_mcbond_it 3.339 r_angle_refined_deg 1.501 r_nbtor_refined 0.326
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.176 r_dihedral_angle_4_deg 25.252 r_dihedral_angle_3_deg 15.193 r_scangle_it 10.234 r_scbond_it 7.331 r_dihedral_angle_1_deg 5.258 r_mcangle_it 4.802 r_mcbond_it 3.339 r_angle_refined_deg 1.501 r_nbtor_refined 0.326 r_symmetry_vdw_refined 0.277 r_symmetry_hbond_refined 0.267 r_nbd_refined 0.255 r_xyhbond_nbd_refined 0.181 r_chiral_restr 0.107 r_bond_refined_d 0.017 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6280 Nucleic Acid Atoms Solvent Atoms 431 Heterogen Atoms 36
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction BLU-MAX data collection HKL-2000 data reduction HKL-2000 data scaling SHARP phasing