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Crystal structure of the catalytic domain of c-Met kinase in complex with ARQ 197
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 277 13% ethanol, 12% ethylene glycol, 100mM imidazole, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.62 53.03
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 53.47 α = 88.41 b = 58.67 β = 68.1 c = 64.96 γ = 85.52
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 QUANTUM 315 2008-07-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X29A 1.075 NSLS X29A
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 1.94 50 94.5 52006 5526 9041
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 1.94 10 48018 2580 93.63 0.20312 0.2004 0.2023 0.2542 0.256 RANDOM 16.734
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] 0.82 0.7 0.81 -0.65 -0.57 -0.86
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.021 r_dihedral_angle_4_deg 14.725 r_dihedral_angle_3_deg 13.62 r_dihedral_angle_1_deg 5.684 r_scangle_it 2.347 r_scbond_it 1.541 r_angle_refined_deg 1.429 r_mcangle_it 1.107 r_mcbond_it 0.649 r_nbtor_refined 0.307
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.021 r_dihedral_angle_4_deg 14.725 r_dihedral_angle_3_deg 13.62 r_dihedral_angle_1_deg 5.684 r_scangle_it 2.347 r_scbond_it 1.541 r_angle_refined_deg 1.429 r_mcangle_it 1.107 r_mcbond_it 0.649 r_nbtor_refined 0.307 r_nbd_refined 0.197 r_symmetry_vdw_refined 0.168 r_symmetry_hbond_refined 0.162 r_xyhbond_nbd_refined 0.153 r_chiral_restr 0.088 r_bond_refined_d 0.009 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4649 Nucleic Acid Atoms Solvent Atoms 598 Heterogen Atoms 56
Software Software Software Name Purpose HKL-2000 data collection SHARP phasing REFMAC refinement HKL-2000 data reduction SCALA data scaling