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FGFR1 Kinase Domain Soak with Inhibitor TYRA-300
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other FGFR1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 277 25%P8K, 25% EG, 0.25M AS, 0.1MPCTP pH7.5
Crystal Properties Matthews coefficient Solvent content 2.65 53.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 206.03 α = 90 b = 57.614 β = 107.185 c = 65.694 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 100 CCD APEX II CCD 2020-10-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE BRUKER AXS MICROSTAR 1.54184
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim 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 2.939 49.256 99.8 0.141 0.16 0.074 0.988 7.9 4.5 15930
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.939 3.04 98.4 0.63 0.782 0.454 0.686 1.4 2.8
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2.939 49.256 15924 773 99.724 0.215 0.213 0.2177 0.2629 0.2621 46.308
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] -0.44 -0.914 2.168 -0.976
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 12.953 r_dihedral_angle_3_deg 12.433 r_dihedral_angle_2_deg 12.425 r_lrange_it 7.287 r_lrange_other 7.155 r_dihedral_angle_1_deg 5.65 r_scangle_it 2.609 r_scangle_other 2.265 r_mcangle_it 1.895 r_mcangle_other 1.895
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 12.953 r_dihedral_angle_3_deg 12.433 r_dihedral_angle_2_deg 12.425 r_lrange_it 7.287 r_lrange_other 7.155 r_dihedral_angle_1_deg 5.65 r_scangle_it 2.609 r_scangle_other 2.265 r_mcangle_it 1.895 r_mcangle_other 1.895 r_scbond_it 1.571 r_scbond_other 1.333 r_mcbond_it 1.072 r_mcbond_other 1.072 r_angle_refined_deg 0.914 r_angle_other_deg 0.335 r_nbd_refined 0.196 r_symmetry_nbd_other 0.175 r_nbtor_refined 0.172 r_symmetry_xyhbond_nbd_refined 0.166 r_nbd_other 0.145 r_xyhbond_nbd_refined 0.137 r_symmetry_nbd_refined 0.1 r_ncsr_local_group_1 0.087 r_symmetry_xyhbond_nbd_other 0.075 r_symmetry_nbtor_other 0.073 r_chiral_restr 0.043 r_gen_planes_refined 0.003 r_bond_refined_d 0.002 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4539 Nucleic Acid Atoms Solvent Atoms 60 Heterogen Atoms 151
Software Software Software Name Purpose REFMAC refinement SAINT data scaling SAINT data reduction PHASER phasing