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Crystal structure of KasA of Mycobacterium tuberculosis
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2GP6 PDB ENTRY 2GP6
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 2-PROPANOL, NACL HEPES PH 7.5
Crystal Properties Matthews coefficient Solvent content 2.96 58.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 77.529 α = 90 b = 77.529 β = 90 c = 146.803 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 RIGAKU IMAGING PLATE M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF
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 2.01 39.55 99.7 0.08 9 4.4 34607 25.4
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 2.01 2.08 100 0.34 3 4.3
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 2GP6 2.01 38.778 34601 1734 99.594 0.181 0.1798 0.194 0.2143 0.2154 RANDOM 32.865
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] 0.947 0.474 0.947 -1.421
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.678 r_dihedral_angle_4_deg 16.801 r_dihedral_angle_3_deg 11.889 r_dihedral_angle_1_deg 5.959 r_scangle_it 3.264 r_scbond_it 1.952 r_angle_refined_deg 1.296 r_mcangle_it 1.245 r_mcbond_it 0.666 r_symmetry_vdw_other 0.304
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.678 r_dihedral_angle_4_deg 16.801 r_dihedral_angle_3_deg 11.889 r_dihedral_angle_1_deg 5.959 r_scangle_it 3.264 r_scbond_it 1.952 r_angle_refined_deg 1.296 r_mcangle_it 1.245 r_mcbond_it 0.666 r_symmetry_vdw_other 0.304 r_nbd_refined 0.219 r_nbtor_refined 0.17 r_symmetry_hbond_refined 0.139 r_mcbond_other 0.138 r_xyhbond_nbd_refined 0.127 r_symmetry_vdw_refined 0.125 r_metal_ion_refined 0.107 r_chiral_restr 0.079 r_bond_refined_d 0.012 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_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 183 Heterogen Atoms 29
Software Software Software Name Purpose REFMAC refinement CrystalClear data reduction CrystalClear data scaling PHASER phasing