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The crystal structure of the 1st PDZ domain of MPDZ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 298 0.5% Jeffamine 2001, 1.1M Sodium Malonate, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.26 55.38
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 100.366 α = 90 b = 32.66 β = 110.68 c = 92.803 γ = 90
Symmetry Space Group C 1 2 1
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 MARMOSAIC 225 mm CCD 2006-10-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA SLS X10SA
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 2.7 29.78 99.8 0.078 0.0835 3.6 8048 8029
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 2.7 2.8 99.4 0.5129 0.545 1.93 3.5 823
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) 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 2.7 29.78 8029 7639 390 99.86 0.22681 0.22361 0.2262 0.29131 0.2938 RANDOM 24.951
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] 5.67 0.24 0.26 -5.77
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.494 r_dihedral_angle_3_deg 17.449 r_dihedral_angle_4_deg 13.653 r_dihedral_angle_1_deg 5.884 r_scangle_it 1.664 r_angle_refined_deg 1.25 r_scbond_it 1.004 r_angle_other_deg 0.88 r_mcangle_it 0.503 r_mcbond_it 0.334
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.494 r_dihedral_angle_3_deg 17.449 r_dihedral_angle_4_deg 13.653 r_dihedral_angle_1_deg 5.884 r_scangle_it 1.664 r_angle_refined_deg 1.25 r_scbond_it 1.004 r_angle_other_deg 0.88 r_mcangle_it 0.503 r_mcbond_it 0.334 r_symmetry_hbond_refined 0.293 r_nbd_refined 0.214 r_nbd_other 0.192 r_nbtor_refined 0.179 r_xyhbond_nbd_refined 0.155 r_symmetry_vdw_other 0.151 r_mcbond_other 0.117 r_symmetry_vdw_refined 0.111 r_nbtor_other 0.085 r_chiral_restr 0.073 r_bond_refined_d 0.011 r_gen_planes_refined 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1613 Nucleic Acid Atoms Solvent Atoms 25 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling PHASER phasing