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Crystal structure of Human Fibroblast Growth Factor Receptor 1 Kinase domain in complex with compound 6
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1FGK PDB ENTRY 1FGK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 277 16-20% PEG8000, 100 mM PCTP, 100-300 mM ammonium sulfate, 25% ethylene glycol, pH 6.25-7.25, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.65 53.66
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 208.81 α = 90 b = 57.277 β = 107.55 c = 65.433 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 110 CCD RIGAKU SATURN 92 2004-12-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 1.54
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (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 2.05 61.931 96.75 0.149 0.128 6.6 2.7 46555 44839 1 1
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.05 2.16 96.06 0.572 0.504 2.2 2.7
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 1FGK 2.05 61.9 44839 42144 2248 95.36 0.21701 0.21426 0.2272 0.26912 0.2728 RANDOM 26.505
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] -2.11 -0.96 3.77 -2.24
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.054 r_dihedral_angle_4_deg 15.722 r_dihedral_angle_3_deg 14.372 r_dihedral_angle_1_deg 5.795 r_scangle_it 3.149 r_scbond_it 2.45 r_angle_refined_deg 1.403 r_mcangle_it 1.245 r_mcbond_it 0.915 r_angle_other_deg 0.831
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.054 r_dihedral_angle_4_deg 15.722 r_dihedral_angle_3_deg 14.372 r_dihedral_angle_1_deg 5.795 r_scangle_it 3.149 r_scbond_it 2.45 r_angle_refined_deg 1.403 r_mcangle_it 1.245 r_mcbond_it 0.915 r_angle_other_deg 0.831 r_mcbond_other 0.459 r_symmetry_vdw_other 0.293 r_nbd_refined 0.204 r_nbd_other 0.194 r_nbtor_refined 0.176 r_xyhbond_nbd_refined 0.159 r_symmetry_hbond_refined 0.145 r_chiral_restr 0.087 r_nbtor_other 0.084 r_symmetry_vdw_refined 0.082 r_bond_refined_d 0.014 r_bond_other_d 0.006 r_gen_planes_refined 0.005 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4229 Nucleic Acid Atoms Solvent Atoms 216 Heterogen Atoms 73
Software Software Software Name Purpose CrystalClear data collection AMoRE phasing REFMAC refinement MOSFLM data reduction SCALA data scaling