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Crystal structure of the human Fyn SH3 R96W mutant
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1SHF PDB entry 1shf
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 9.1 277 2.0M ammonium sulphate, 2% PEG 400, 0.1M Tris, pH 9.1, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.23 44.85
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 52.103 α = 90 b = 52.103 β = 90 c = 53.259 γ = 90
Symmetry Space Group P 41 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 295 IMAGE PLATE MAR scanner 300 mm plate osmic mirrors 2004-01-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200 1.542
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 2.61 30.3 91.9 0.15 0.13 13.4 5.7 2270 2270 45.2
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) 2.61 2.72 58.2 0.63 0.52 1.7 2.7 542
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 (All) 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 1shf 2.61 30.3 2119 2119 216 94.73 0.20912 0.20912 0.20199 0.1974 0.28226 0.256 RANDOM 23.459
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] -0.33 -0.33 0.66
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.564 r_dihedral_angle_4_deg 19.459 r_dihedral_angle_3_deg 17.344 r_dihedral_angle_1_deg 6.375 r_scangle_it 4.649 r_scbond_it 2.615 r_mcangle_it 2.151 r_angle_refined_deg 1.703 r_mcbond_it 1.118 r_angle_other_deg 0.156
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.564 r_dihedral_angle_4_deg 19.459 r_dihedral_angle_3_deg 17.344 r_dihedral_angle_1_deg 6.375 r_scangle_it 4.649 r_scbond_it 2.615 r_mcangle_it 2.151 r_angle_refined_deg 1.703 r_mcbond_it 1.118 r_angle_other_deg 0.156 r_chiral_restr 0.116 r_bond_refined_d 0.017 r_gen_planes_refined 0.007 r_bond_other_d 0.002 r_gen_planes_other 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_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 481 Nucleic Acid Atoms Solvent Atoms 9 Heterogen Atoms 12
Software Software Software Name Purpose MAR345 data collection MOLREP phasing REFMAC refinement MOSFLM data reduction SCALA data scaling