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Dihydrofolate reductase from Mycobacterium tuberculosis inhibited by the acyclic 4R isomer of INH-NADP a derivative of the prodrug isoniazid.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1DF7 PDB ENTRY 1DF7
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 4.5 1.6 M AMMONIUM SULFATE, 100 MM SODIUM ACETATE, PH 4.6, 10 % GLYCEROL
Crystal Properties Matthews coefficient Solvent content 2.64 53.1
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 60.67 α = 90 b = 60.67 β = 90 c = 59.147 γ = 90
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 194 IMAGE PLATE MSC R-AXIS IV OSMIC CONFOCAL MAXFLUX OPTICS 2005-07-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200B
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 1.9 30 100 0.05 20.7 4.9 84102
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 1.9 2 100 0.26 4.6 4.4
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 MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1DF7 1.9 60.63 16144 862 100 0.18 0.178 0.1756 0.212 0.2103 RANDOM 24.04
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] -0.79 -0.79 1.59
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.738 r_dihedral_angle_4_deg 17.394 r_dihedral_angle_3_deg 15.635 r_dihedral_angle_1_deg 6.557 r_scangle_it 4.489 r_scbond_it 2.944 r_mcangle_it 2.064 r_angle_refined_deg 1.999 r_mcbond_it 1.305 r_nbtor_refined 0.307
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.738 r_dihedral_angle_4_deg 17.394 r_dihedral_angle_3_deg 15.635 r_dihedral_angle_1_deg 6.557 r_scangle_it 4.489 r_scbond_it 2.944 r_mcangle_it 2.064 r_angle_refined_deg 1.999 r_mcbond_it 1.305 r_nbtor_refined 0.307 r_symmetry_vdw_refined 0.244 r_nbd_refined 0.209 r_symmetry_hbond_refined 0.155 r_chiral_restr 0.144 r_xyhbond_nbd_refined 0.131 r_bond_refined_d 0.021 r_gen_planes_refined 0.011 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_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1244 Nucleic Acid Atoms Solvent Atoms 137 Heterogen Atoms 90
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction CCP4 data scaling AMoRE phasing