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Crystal structure of human ALK2 kinase domain with R206H mutation in complex with a bicyclic pyrazole inhibitor RK-73134
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3MTF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 100 mM HEPES pH 7.6-8.0, 1.5-1.6 M ammonium sulfate
Crystal Properties Matthews coefficient Solvent content 2.56 51.9
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 84.34 α = 90 b = 140.259 β = 90 c = 59.758 γ = 90
Symmetry Space Group P 21 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS 2M-F 2018-09-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06DA 1.000 SLS X06DA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) CC (Half) 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 1.8 50 99.7 0.107 0.111 1 18.92 13.39 66091 34.77
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.8 1.91 99.1 1.562 1.622 0.787 1.6 13.5
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 3MTF 1.802 46.098 66085 3302 99.622 0.187 0.1851 0.1945 0.2266 0.2324 32.697
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] 1.837 -2.251 0.414
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.798 r_dihedral_angle_4_deg 19.547 r_dihedral_angle_3_deg 14.378 r_lrange_it 7.656 r_lrange_other 7.282 r_dihedral_angle_1_deg 7.242 r_scangle_it 4.204 r_scangle_other 3.893 r_mcangle_it 2.914 r_mcangle_other 2.914
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.798 r_dihedral_angle_4_deg 19.547 r_dihedral_angle_3_deg 14.378 r_lrange_it 7.656 r_lrange_other 7.282 r_dihedral_angle_1_deg 7.242 r_scangle_it 4.204 r_scangle_other 3.893 r_mcangle_it 2.914 r_mcangle_other 2.914 r_scbond_it 2.792 r_scbond_other 2.441 r_mcbond_it 1.924 r_mcbond_other 1.921 r_angle_refined_deg 1.84 r_angle_other_deg 1.436 r_nbd_refined 0.212 r_symmetry_nbd_other 0.186 r_nbd_other 0.181 r_nbtor_refined 0.173 r_symmetry_xyhbond_nbd_refined 0.173 r_xyhbond_nbd_refined 0.163 r_symmetry_nbd_refined 0.116 r_chiral_restr 0.092 r_symmetry_nbtor_other 0.087 r_bond_refined_d 0.014 r_gen_planes_refined 0.011 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4680 Nucleic Acid Atoms Solvent Atoms 469 Heterogen Atoms 171
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling MOLREP phasing