☰ Navigation Tabs
FGFR2 kinase domain (residues 461-763) in complex with 38.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2PVF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.6 291 25% w/v PEG 3350, 0.1 M ammonium sulfate, 0.1 M HEPES
Crystal Properties Matthews coefficient Solvent content 2.73 54.98
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 113.839 α = 90 b = 113.839 β = 90 c = 117.408 γ = 90
Symmetry Space Group P 43 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 2017-11-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE MASSIF-1 0.966 ESRF MASSIF-1
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 2.28 80.54 99.9 0.141 0.152 0.056 0.989 6.6 7.1 35802
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 2.28 2.34 2.588 2.777 1.389 0.683
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 2PVF 2.28 80.5 35216 1691 98.3 0.243 0.2403 0.2403 0.2959 0.296 50.923
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] -1.096 -1.096 2.192
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.054 r_dihedral_angle_4_deg 18.383 r_dihedral_angle_3_deg 14.416 r_lrange_other 8.089 r_lrange_it 8.088 r_dihedral_angle_1_deg 7.188 r_scangle_it 5.715 r_scangle_other 5.714 r_mcangle_it 5.565 r_mcangle_other 5.564
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.054 r_dihedral_angle_4_deg 18.383 r_dihedral_angle_3_deg 14.416 r_lrange_other 8.089 r_lrange_it 8.088 r_dihedral_angle_1_deg 7.188 r_scangle_it 5.715 r_scangle_other 5.714 r_mcangle_it 5.565 r_mcangle_other 5.564 r_scbond_it 3.686 r_scbond_other 3.686 r_mcbond_it 3.675 r_mcbond_other 3.671 r_angle_refined_deg 1.43 r_angle_other_deg 1.186 r_symmetry_nbd_refined 0.267 r_nbd_other 0.194 r_nbd_refined 0.188 r_symmetry_nbd_other 0.177 r_symmetry_xyhbond_nbd_refined 0.164 r_nbtor_refined 0.159 r_xyhbond_nbd_refined 0.158 r_symmetry_nbtor_other 0.076 r_chiral_restr 0.063 r_bond_refined_d 0.006 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_symmetry_xyhbond_nbd_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4389 Nucleic Acid Atoms Solvent Atoms 76 Heterogen Atoms 70
Software Software Software Name Purpose DIALS data reduction Aimless data scaling PHASER phasing REFMAC refinement