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Yeast BBC1 Sh3 domain complexed with a peptide from Las17
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1TG0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 295 VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.3 42.511078
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 51.77 α = 90 b = 78.5 β = 90 c = 35.46 γ = 90
Symmetry Space Group P 21 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 100 CCD MARRESEARCH 2005-04-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X11 0.813 EMBL/DESY, HAMBURG X11
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.86 20 98.4 0.065 15.3 4.3 12659 12659 -3 -3 27.4
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.86 1.95 98.5 0.334 2.8 3.8
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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 1TG0 1.9 15 -3 11879 11879 594 99.85 0.17645 0.17645 0.1739 0.187 0.22599 0.2392 RANDOM 28.698
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] -0.96 -1.34 2.29
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.262 r_dihedral_angle_4_deg 12.752 r_dihedral_angle_3_deg 12.56 r_dihedral_angle_1_deg 6.544 r_scangle_it 2.004 r_scbond_it 1.696 r_mcangle_it 1.291 r_angle_refined_deg 1.279 r_mcbond_it 1.097 r_angle_other_deg 0.762
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.262 r_dihedral_angle_4_deg 12.752 r_dihedral_angle_3_deg 12.56 r_dihedral_angle_1_deg 6.544 r_scangle_it 2.004 r_scbond_it 1.696 r_mcangle_it 1.291 r_angle_refined_deg 1.279 r_mcbond_it 1.097 r_angle_other_deg 0.762 r_symmetry_vdw_other 0.237 r_mcbond_other 0.186 r_nbtor_refined 0.182 r_nbd_refined 0.179 r_nbd_other 0.176 r_symmetry_hbond_refined 0.158 r_xyhbond_nbd_refined 0.137 r_nbtor_other 0.091 r_symmetry_vdw_refined 0.087 r_chiral_restr 0.073 r_metal_ion_refined 0.033 r_bond_refined_d 0.009 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1154 Nucleic Acid Atoms Solvent Atoms 179 Heterogen Atoms 3
Software Software Software Name Purpose REFMAC refinement MAR345 data collection XDS data scaling MOLREP phasing