☰ Navigation Tabs
Crystal structure of Mycobacterium tuberculosis dUTPase R140K, H145W mutant
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3HZA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 1.5 M ammonium sulfate, 0.1M Tris/HCl, 12% glycerol, 6.7 mM dUPnPP, 20 mM magnesium chloride
Crystal Properties Matthews coefficient Solvent content 2.04 39.87
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 55.052 α = 90 b = 55.052 β = 90 c = 83.827 γ = 120
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 AGILENT EOS CCD 2013-09-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SEALED TUBE OTHER 1.54056
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 1.97 41.91 99.8 0.13 6.1 3.51 10220 10220
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 1.97 2.08 100 0.497 1.6 2.5
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 FOURIER SYNTHESIS THROUGHOUT 3HZA 1.97 41.91 9690 495 99.56 0.16237 0.15994 0.1749 0.21108 0.2166 RANDOM 21.018
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] 0.03 0.01 0.03 -0.08
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.434 r_dihedral_angle_4_deg 17.977 r_dihedral_angle_1_deg 14.529 r_dihedral_angle_3_deg 12.356 r_long_range_B_refined 5.586 r_long_range_B_other 5.043 r_scangle_other 2.757 r_mcangle_it 2.218 r_mcangle_other 2.217 r_angle_refined_deg 2.005
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.434 r_dihedral_angle_4_deg 17.977 r_dihedral_angle_1_deg 14.529 r_dihedral_angle_3_deg 12.356 r_long_range_B_refined 5.586 r_long_range_B_other 5.043 r_scangle_other 2.757 r_mcangle_it 2.218 r_mcangle_other 2.217 r_angle_refined_deg 2.005 r_scbond_other 1.819 r_scbond_it 1.814 r_mcbond_it 1.433 r_mcbond_other 1.412 r_angle_other_deg 0.938 r_chiral_restr 0.103 r_bond_refined_d 0.018 r_gen_planes_refined 0.009 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1026 Nucleic Acid Atoms Solvent Atoms 159 Heterogen Atoms 37
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling Coot model building