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Structure of isoniazid (INH) bound to cytochrome c peroxidase mutant N184R Y36A
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2V23 PDB ENTRY 2V23
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICRODIALYSIS 6 MICRODIALYSIS INTO 50MM POTASSIUM PHOSPHATE, PH 6.0 CONTAINING 30% V/V MPD. ISONIAZID WAS DISSOLVED INTO THE MOTHER LIQUOR (300MM) AND SOAKED INTO THE CRYSTAL.
Crystal Properties Matthews coefficient Solvent content 3.06 59.84
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 51.147 α = 90 b = 75.13 β = 90 c = 106.864 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 IMAGE PLATE RIGAKU IMAGE PLATE XENOCS MULTI-LAYER M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RUH2R
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 1.68 30.28 81.9 0.03 27.4 3.3 38990
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 1.68 1.77 20.3 0.13 5.8 1.2
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 2V23 1.68 30.28 36963 1983 82.2 0.166 0.165 0.1633 0.187 0.1854 RANDOM 13.15
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] 0.1 -0.03 -0.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.871 r_dihedral_angle_4_deg 24.182 r_dihedral_angle_3_deg 12.348 r_dihedral_angle_1_deg 5.317 r_scangle_it 2.376 r_scbond_it 1.607 r_angle_refined_deg 1.131 r_mcangle_it 1.033 r_mcbond_it 0.665 r_nbtor_refined 0.304
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.871 r_dihedral_angle_4_deg 24.182 r_dihedral_angle_3_deg 12.348 r_dihedral_angle_1_deg 5.317 r_scangle_it 2.376 r_scbond_it 1.607 r_angle_refined_deg 1.131 r_mcangle_it 1.033 r_mcbond_it 0.665 r_nbtor_refined 0.304 r_nbd_refined 0.194 r_symmetry_vdw_refined 0.187 r_symmetry_hbond_refined 0.118 r_xyhbond_nbd_refined 0.102 r_chiral_restr 0.079 r_bond_refined_d 0.01 r_gen_planes_refined 0.004 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 2340 Nucleic Acid Atoms Solvent Atoms 315 Heterogen Atoms 53
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling REFMAC phasing