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Crystal structure of the SH3 domain from S. cerevisiae Myo3
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 293 Ammonium sulfate, pH 8, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 1.98 37.34
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 40.33 α = 90 b = 48 β = 90 c = 78.86 γ = 90
Symmetry Space Group I 2 2 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD MARRESEARCH 2003-11-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X11 0.811 EMBL/DESY, HAMBURG X11
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 1.8 20 99.2 0.084 0.061 12.7 4 7396 7337 -3
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) 1.8 1.9 97.5 0.295 0.367 3.8 3.7
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-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1.8 10 6782 511 99.36 0.17759 0.17759 0.17279 0.24611 0.285 RANDOM 19.649
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] 1.13 -1.82 0.69
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 8.696 r_scangle_it 5.165 r_scbond_it 4.174 r_mcangle_it 3.583 r_mcbond_it 2.512 r_angle_refined_deg 1.018 r_angle_other_deg 0.641 r_symmetry_vdw_other 0.262 r_nbd_other 0.248 r_symmetry_vdw_refined 0.233
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 8.696 r_scangle_it 5.165 r_scbond_it 4.174 r_mcangle_it 3.583 r_mcbond_it 2.512 r_angle_refined_deg 1.018 r_angle_other_deg 0.641 r_symmetry_vdw_other 0.262 r_nbd_other 0.248 r_symmetry_vdw_refined 0.233 r_nbd_refined 0.183 r_xyhbond_nbd_refined 0.167 r_symmetry_hbond_refined 0.165 r_nbtor_other 0.082 r_chiral_restr 0.077 r_bond_refined_d 0.011 r_gen_planes_refined 0.005 r_bond_other_d 0.003 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 578 Nucleic Acid Atoms Solvent Atoms 106 Heterogen Atoms 5
Software Software Software Name Purpose REFMAC refinement DENZO data reduction CCP4 data scaling AMoRE phasing