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Crystal structure of KasA of Mycobacterium tuberculosis with bound TLM
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2WGD PDB ENTRY 2WGD
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 2-PROPANOL NACL HEPES PH 7.5
Crystal Properties Matthews coefficient Solvent content 3.04 59.51
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 77.542 α = 90 b = 77.542 β = 90 c = 148.458 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 100 CCD ADSC CCD M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-1 ESRF ID14-1
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 1.79 50.06 99 0.06 19.1 6.7 48833 18.1
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 1.8 1.9 93.2 0.32 7.5 6.45
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 2WGD 1.8 49.81 46350 2434 98.96 0.16902 0.16737 0.1756 0.20129 0.2052 RANDOM 17.381
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] 0.74 0.37 0.74 -1.1
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.959 r_dihedral_angle_4_deg 14.471 r_dihedral_angle_3_deg 12.535 r_dihedral_angle_1_deg 6.141 r_scangle_it 3.59 r_scbond_it 2.171 r_angle_refined_deg 1.421 r_mcangle_it 1.38 r_angle_other_deg 0.974 r_mcbond_it 0.78
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.959 r_dihedral_angle_4_deg 14.471 r_dihedral_angle_3_deg 12.535 r_dihedral_angle_1_deg 6.141 r_scangle_it 3.59 r_scbond_it 2.171 r_angle_refined_deg 1.421 r_mcangle_it 1.38 r_angle_other_deg 0.974 r_mcbond_it 0.78 r_symmetry_vdw_refined 0.471 r_symmetry_vdw_other 0.279 r_nbd_refined 0.216 r_mcbond_other 0.199 r_nbd_other 0.196 r_nbtor_refined 0.172 r_symmetry_hbond_refined 0.144 r_xyhbond_nbd_refined 0.137 r_metal_ion_refined 0.114 r_chiral_restr 0.088 r_nbtor_other 0.085 r_bond_refined_d 0.013 r_gen_planes_refined 0.005 r_bond_other_d 0.002 r_gen_planes_other 0.002 r_xyhbond_nbd_other r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_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 3029 Nucleic Acid Atoms Solvent Atoms 281 Heterogen Atoms 61
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing