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Crystal structure of the TetR transcriptional regulator from Nitrosomonas europaea ATCC 19718
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 7.5 293 0.1M HEPES, 0.65M MGFORMATE, pH 7.5, VAPOR DIFFUSION, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.32 46.94
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 64.222 α = 90 b = 75.378 β = 90 c = 98.079 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 ADSC QUANTUM 315 MIRROR 2006-06-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.9790 APS 19-ID
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 2.8 50 99.9 0.122 0.122 19.797 7.1 12269 12269 -3 69.8
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 2.8 2.85 94.8 0.708 0.708 2.1 6.9
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 (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 SAD THROUGHOUT 2.78 50 12316 12223 590 99.11 0.25 0.25 0.249 0.2553 0.279 0.2663 RANDOM 81.49
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] -0.09 0.29 -0.19
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.44 r_dihedral_angle_3_deg 17.873 r_dihedral_angle_4_deg 17.219 r_dihedral_angle_1_deg 4.627 r_scangle_it 4.349 r_angle_other_deg 4.169 r_scbond_it 2.834 r_angle_refined_deg 1.637 r_mcangle_it 1.334 r_mcbond_other 0.903
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.44 r_dihedral_angle_3_deg 17.873 r_dihedral_angle_4_deg 17.219 r_dihedral_angle_1_deg 4.627 r_scangle_it 4.349 r_angle_other_deg 4.169 r_scbond_it 2.834 r_angle_refined_deg 1.637 r_mcangle_it 1.334 r_mcbond_other 0.903 r_mcbond_it 0.683 r_chiral_restr 0.084 r_bond_refined_d 0.02 r_gen_planes_other 0.008 r_gen_planes_refined 0.006 r_bond_other_d
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2727 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose HKL-2000 data collection HKL-3000 phasing MLPHARE phasing DM model building SHELXD phasing RESOLVE model building ARP/wARP model building BUCCANEER model building REFMAC refinement Coot model building HKL-2000 data reduction HKL-2000 data scaling DM phasing RESOLVE phasing BUCCANEER phasing