☰ Navigation Tabs
Crystal structure of the catalytic domain of RpfB from Mycobacterium tuberculosis
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 293 6 mg mL-1, 0,5% (w/v) PEG8000, 1M ammonium sulphate, 0,1 M Hepes, pH 7.5, and 120 mM benzamidine , VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.07 40.61
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.427 α = 90 b = 51.595 β = 104.06 c = 66.594 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 Saturn944 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 1.5
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.45 30 92.6 38135 38135
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) 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 MOLECULAR REPLACEMENT THROUGHOUT 1.45 25.327 2076 82.21 0.14727 0.14487 0.1534 0.19221 0.1988 RANDOM 14.104
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] -0.32 -0.39 1.16 -1.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.801 r_dihedral_angle_4_deg 16.881 r_dihedral_angle_3_deg 13.487 r_dihedral_angle_1_deg 6.78 r_sphericity_free 5.693 r_scangle_it 4.387 r_scbond_it 3.054 r_sphericity_bonded 2.216 r_mcangle_it 2.094 r_angle_refined_deg 1.531
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.801 r_dihedral_angle_4_deg 16.881 r_dihedral_angle_3_deg 13.487 r_dihedral_angle_1_deg 6.78 r_sphericity_free 5.693 r_scangle_it 4.387 r_scbond_it 3.054 r_sphericity_bonded 2.216 r_mcangle_it 2.094 r_angle_refined_deg 1.531 r_rigid_bond_restr 1.493 r_mcbond_it 1.36 r_angle_other_deg 1.088 r_mcbond_other 0.546 r_chiral_restr 0.108 r_bond_refined_d 0.016 r_gen_planes_refined 0.008 r_bond_other_d 0.002 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2392 Nucleic Acid Atoms Solvent Atoms 516 Heterogen Atoms 10
Software Software Software Name Purpose HKL-2000 data collection PHASER phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling