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PyrR of Mycobacterium Tuberculosis as a potential drug target
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1A3C PDB ENTRY 1A3C
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 SITTING DROPS 0.5UL + 0.5UL IN INTELLIPLATE, 0.1M IMIDAZOLE-MALEATE PH 7.5, 26% PEG-MME 2K, 2.8% EDTA. CRYSTAL APPROXIMATELY 50 MICRON RHOMBOID.
Crystal Properties Matthews coefficient Solvent content 2.3 46.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 66.638 α = 90 b = 66.638 β = 90 c = 154.716 γ = 120
Symmetry Space Group P 31 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 120 CCD ADSC CCD MIRRORS 2003-07-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.3 ALS 5.0.3
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 1.86 38.8 99.6 0.071 13 4.4 34571
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 1.85 1.92 99.8 0.423 2.4 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 1A3C 1.9 30 30276 1589 99 0.206 0.205 0.2158 0.244 0.2516 RANDOM 31.99
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] 0.45 0.22 0.45 -0.67
RMS Deviations Key Refinement Restraint Deviation r_chiral_restr 6.65 r_scangle_it 5.167 r_scbond_it 2.998 r_mcangle_it 2.167 r_angle_other_deg 1.798 r_mcbond_it 1.222 r_dihedral_angle_3_deg 0.967 r_symmetry_vdw_other 0.319 r_nbd_other 0.266 r_symmetry_hbond_refined 0.248
RMS Deviations Key Refinement Restraint Deviation r_chiral_restr 6.65 r_scangle_it 5.167 r_scbond_it 2.998 r_mcangle_it 2.167 r_angle_other_deg 1.798 r_mcbond_it 1.222 r_dihedral_angle_3_deg 0.967 r_symmetry_vdw_other 0.319 r_nbd_other 0.266 r_symmetry_hbond_refined 0.248 r_symmetry_vdw_refined 0.217 r_nbd_refined 0.206 r_xyhbond_nbd_refined 0.2 r_nbtor_other 0.091 r_bond_refined_d 0.02 r_gen_planes_refined 0.007 r_gen_planes_other 0.004 r_bond_other_d 0.002 r_angle_refined_deg r_dihedral_angle_1_deg r_dihedral_angle_2_deg r_dihedral_angle_4_deg r_nbtor_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_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 2656 Nucleic Acid Atoms Solvent Atoms 329 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling EPMR phasing