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Crystal Structure of Human Wild-Type Fgr SH3-SH2-Linker Domains.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7UY0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.5 298.15 0.1 M Bis-Tris pH 5.5, 0.2 M NaCl, 25% (w/v) PEG 3350
Crystal Properties Matthews coefficient Solvent content 2.26 45.63
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.185 α = 90 b = 34.867 β = 100.754 c = 60.109 γ = 90
Symmetry Space Group P 1 21 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 PIXEL DECTRIS EIGER X 16M KB bent focusing mirrors 2025-06-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-B 1.0332 APS 23-ID-B
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 1.8 38.55 98.6 0.231 0.259 0.115 0.981 5.5 4.5 16655
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 1.8 1.84 97.4 1.43 1.61 0.722 0.429 1.7 4.3
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) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1.8 38.55 16636 797 97.986 0.168 0.1656 0.1652 0.207 0.204 RANDOM 18.155
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] -0.19 -0.063 -0.983 1.117
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 16.367 r_dihedral_angle_3_deg 12.831 r_dihedral_angle_2_deg 7.817 r_dihedral_angle_1_deg 7.815 r_lrange_it 5.715 r_lrange_other 5.647 r_scangle_it 3.702 r_scangle_other 3.7 r_scbond_it 2.579 r_scbond_other 2.578
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 16.367 r_dihedral_angle_3_deg 12.831 r_dihedral_angle_2_deg 7.817 r_dihedral_angle_1_deg 7.815 r_lrange_it 5.715 r_lrange_other 5.647 r_scangle_it 3.702 r_scangle_other 3.7 r_scbond_it 2.579 r_scbond_other 2.578 r_angle_refined_deg 2.27 r_mcangle_it 1.573 r_mcangle_other 1.573 r_mcbond_it 1.041 r_mcbond_other 1.041 r_angle_other_deg 0.789 r_symmetry_xyhbond_nbd_refined 0.221 r_symmetry_nbd_refined 0.215 r_nbd_refined 0.213 r_xyhbond_nbd_refined 0.197 r_symmetry_nbd_other 0.195 r_nbtor_refined 0.187 r_nbd_other 0.186 r_chiral_restr 0.118 r_symmetry_nbtor_other 0.092 r_bond_refined_d 0.015 r_gen_planes_refined 0.012 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1418 Nucleic Acid Atoms Solvent Atoms 136 Heterogen Atoms 54
Software Software Software Name Purpose REFMAC refinement REFMAC refinement Coot model building PHASER phasing Aimless data scaling xia2 data reduction