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human Fyn SH3 domain R96I mutant, crystal form I
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, SITTING DROP 5.6 291 0.5M ammonium sulphate, 0.1M sodium citrate, 1.0M lithium sulphate, pH 5.6, VAPOR DIFFUSION, SITTING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 1.7914 31.3405
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 41.907 α = 90 b = 41.907 β = 90 c = 32.764 γ = 90
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE MAR scanner 300 mm plate osmic mirror 2004-01-20 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 1.76 20.95 98.5 0.05 0.04 25.2 2.6 5700 14.4
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 1.76 1.85 92.7 0.08 0.064 12.3 2.3 1798
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 1.76 20.95 5235 5235 459 98.55 0.17012 0.17012 0.16567 0.1672 0.22191 0.2209 RANDOM 13.747
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] 0.03 0.03 -0.06
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_4_deg 36.266 r_dihedral_angle_2_deg 32.854 r_dihedral_angle_3_deg 16.632 r_dihedral_angle_1_deg 6.728 r_scangle_it 5.71 r_mcangle_it 4.481 r_scbond_it 3.788 r_mcbond_it 2.983 r_angle_refined_deg 1.936 r_angle_other_deg 1.164
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_4_deg 36.266 r_dihedral_angle_2_deg 32.854 r_dihedral_angle_3_deg 16.632 r_dihedral_angle_1_deg 6.728 r_scangle_it 5.71 r_mcangle_it 4.481 r_scbond_it 3.788 r_mcbond_it 2.983 r_angle_refined_deg 1.936 r_angle_other_deg 1.164 r_chiral_restr 0.249 r_bond_refined_d 0.022 r_gen_planes_refined 0.01 r_bond_other_d 0.003 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 494 Nucleic Acid Atoms Solvent Atoms 35 Heterogen Atoms 13
Software Software Software Name Purpose MAR345 data collection MOLREP phasing REFMAC refinement MOSFLM data reduction SCALA data scaling