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TRK-fused Gene (TFG) PB1 Domain D60A/D62R Variant
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1WMH
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 277 0.1M Tris-HCl pH 8.5, 8% PEG 8000
Crystal Properties Matthews coefficient Solvent content 2.16 42.93
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 107.018 α = 90 b = 32.488 β = 104.8 c = 29.246 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 203 CCD MARMOSAIC 225 mm CCD 2013-12-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-F 0.97872 APS 21-ID-F
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) Rrim I (All) Rpim I (All) 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 1.906 51.73 99.4 0.071 0.076 0.028 7.9 7.2 7690 35.1
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 1.91 1.94 94 0.536 0.582 0.224 0.89 6.1
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 1.906 51.73 7337 352 99.12 0.21555 0.21369 0.2215 0.25406 0.2617 RANDOM 34.708
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] -1.83 -0.67 2.64 -0.41
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.044 r_dihedral_angle_4_deg 12.96 r_dihedral_angle_3_deg 12.902 r_long_range_B_refined 8.606 r_long_range_B_other 8.505 r_dihedral_angle_1_deg 5.918 r_scangle_other 5.039 r_mcangle_it 5.019 r_mcangle_other 5.018 r_scbond_it 2.896
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.044 r_dihedral_angle_4_deg 12.96 r_dihedral_angle_3_deg 12.902 r_long_range_B_refined 8.606 r_long_range_B_other 8.505 r_dihedral_angle_1_deg 5.918 r_scangle_other 5.039 r_mcangle_it 5.019 r_mcangle_other 5.018 r_scbond_it 2.896 r_scbond_other 2.889 r_mcbond_it 2.876 r_mcbond_other 2.866 r_angle_refined_deg 1.342 r_angle_other_deg 0.749 r_chiral_restr 0.073 r_bond_refined_d 0.01 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 707 Nucleic Acid Atoms Solvent Atoms 51 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement HKL-3000 data scaling HKL-3000 data reduction REFMAC phasing