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Crystal structure of KSP in complex with ADP and thiophene containing inhibitor 15
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1Q0B PDB entry 1Q0B
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 277 100 mM Bis-Tris (pH 6.0) 200 mM ammonium sulfate, and 18-20% PEG 3350. 10 mM SrCl2, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.71 54.63
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 161.064 α = 90 b = 80.35 β = 96.83 c = 69.313 γ = 90
Symmetry Space Group C 1 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 CCD ADSC QUANTUM 315 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.2 1.0 ALS 5.0.2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.849 80.06 74875
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 1Q0B 1.849 80.06 70951 3760 99.5 0.21166 0.20967 0.2065 0.24809 0.244 RANDOM 30.897
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] 0.21 -0.32 -0.58 0.3
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.203 r_dihedral_angle_4_deg 17.352 r_dihedral_angle_3_deg 16.821 r_dihedral_angle_1_deg 6.189 r_scangle_it 4.083 r_scbond_it 2.668 r_angle_refined_deg 1.965 r_mcangle_it 1.817 r_mcbond_it 1.147 r_nbtor_refined 0.304
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.203 r_dihedral_angle_4_deg 17.352 r_dihedral_angle_3_deg 16.821 r_dihedral_angle_1_deg 6.189 r_scangle_it 4.083 r_scbond_it 2.668 r_angle_refined_deg 1.965 r_mcangle_it 1.817 r_mcbond_it 1.147 r_nbtor_refined 0.304 r_nbd_refined 0.222 r_symmetry_vdw_refined 0.166 r_xyhbond_nbd_refined 0.156 r_symmetry_hbond_refined 0.138 r_chiral_restr 0.124 r_bond_refined_d 0.016 r_gen_planes_refined 0.015 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5198 Nucleic Acid Atoms Solvent Atoms 474 Heterogen Atoms 104
Software Software Software Name Purpose DENZO data reduction PHASER phasing REFMAC refinement SCALEPACK data scaling