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Crystal Structure of the Mycobacterium tuberculosis Hypoxic Response Regulator DosR C-terminal Domain Crystal Form II
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1ZLJ DosR C-terminal domain (pdb code 1ZLJ) subunit A residues 152-192
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 298 24% w/v PEG 5000mme, 0.2M ammonium sulfate, 10% glycerol, 0.1M MES pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 39.637 α = 90 b = 47.4 β = 90 c = 66.436 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 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.2 1.000 ALS 8.2.2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.7 50 98.5 0.091 19.3 6.43 14128
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.7 1.76 0.59 2.2
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT DosR C-terminal domain (pdb code 1ZLJ) subunit A residues 152-192 1.7 38.58 14088 704 98.52 0.1894 0.1885 0.20612 0.2411 RANDOM 14.26
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] -0.29 -0.34 0.64
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 27.895 r_dihedral_angle_4_deg 21.488 r_dihedral_angle_3_deg 14.086 r_scangle_it 5.143 r_dihedral_angle_1_deg 3.888 r_scbond_it 3.791 r_mcangle_it 2.631 r_mcbond_it 2.09 r_angle_refined_deg 1.33 r_nbtor_refined 0.316
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 27.895 r_dihedral_angle_4_deg 21.488 r_dihedral_angle_3_deg 14.086 r_scangle_it 5.143 r_dihedral_angle_1_deg 3.888 r_scbond_it 3.791 r_mcangle_it 2.631 r_mcbond_it 2.09 r_angle_refined_deg 1.33 r_nbtor_refined 0.316 r_symmetry_vdw_refined 0.254 r_nbd_refined 0.215 r_symmetry_hbond_refined 0.211 r_xyhbond_nbd_refined 0.2 r_chiral_restr 0.096 r_bond_refined_d 0.012 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 768 Nucleic Acid Atoms Solvent Atoms 49 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing