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Crystal structure of of the SH3 domain of phospholipase C Gamma-1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 298 Tacsimate, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2 39.1
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 28.748 α = 90 b = 30.978 β = 92.12 c = 29.753 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 105 CCD ADSC QUANTUM 4 2003-12-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CHESS BEAMLINE F1 0.91 CHESS F1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 1.2 50 96.8 0.077 16059 2 4
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.2 1.24 79 0.181 1302
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 Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1.2 29.75 15999 808 96.98 0.153 0.151 0.1528 0.177 RANDOM 9.503
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] 1.05 0.36 -0.76 -0.26
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.459 r_scangle_it 2.725 r_scbond_it 1.815 r_mcangle_it 1.526 r_angle_refined_deg 1.291 RIGID-BOND RESTRAINTS (A**2) 0.969 r_mcbond_it 0.964 r_angle_other_deg 0.787 r_nbd_other 0.249 r_xyhbond_nbd_refined 0.238
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.459 r_scangle_it 2.725 r_scbond_it 1.815 r_mcangle_it 1.526 r_angle_refined_deg 1.291 RIGID-BOND RESTRAINTS (A**2) 0.969 r_mcbond_it 0.964 r_angle_other_deg 0.787 r_nbd_other 0.249 r_xyhbond_nbd_refined 0.238 r_symmetry_vdw_other 0.232 r_nbd_refined 0.222 r_symmetry_hbond_refined 0.16 r_symmetry_vdw_refined 0.134 r_nbtor_other 0.083 r_chiral_restr 0.08 r_bond_refined_d 0.01 r_gen_planes_refined 0.007 r_bond_other_d 0.002 r_gen_planes_other 0.001 SPHERICITY; FREE ATOMS (A**2) SPHERICITY; BONDED ATOMS (A**2)
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 526 Nucleic Acid Atoms Solvent Atoms 122 Heterogen Atoms
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction