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Crystal Structure of the PDZ Domain from Human RGS-3
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1I92 1I92.pdb, 1QAU.pdb experimental model PDB 1QAU 1I92.pdb, 1QAU.pdb
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 293 1.6M ammonium sulphate, 0.1M MES, 10% dioxane, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.45 49.71
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 91.11 α = 90 b = 44.14 β = 90 c = 49.857 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 MARMOSAIC 225 mm CCD 2005-10-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 0.9788 SLS X10SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.39 49.86 99.7 8381
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.4 2.49 98.8
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 1I92.pdb, 1QAU.pdb 2.39 49.88 7967 7967 386 99.65 0.21698 0.21698 0.21481 0.2172 0.26429 0.2558 RANDOM 40.859
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] -2.18 4.63 -2.45
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.29 r_dihedral_angle_3_deg 15.598 r_dihedral_angle_4_deg 13.663 r_dihedral_angle_1_deg 10.573 r_scangle_it 8.99 r_scbond_it 6.807 r_mcangle_it 4.152 r_mcbond_it 3.122 r_angle_other_deg 1.524 r_angle_refined_deg 1.484
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.29 r_dihedral_angle_3_deg 15.598 r_dihedral_angle_4_deg 13.663 r_dihedral_angle_1_deg 10.573 r_scangle_it 8.99 r_scbond_it 6.807 r_mcangle_it 4.152 r_mcbond_it 3.122 r_angle_other_deg 1.524 r_angle_refined_deg 1.484 r_mcbond_other 1.058 r_symmetry_vdw_other 0.272 r_chiral_restr 0.203 r_nbd_other 0.201 r_nbd_refined 0.2 r_nbtor_refined 0.166 r_xyhbond_nbd_refined 0.147 r_symmetry_vdw_refined 0.137 r_symmetry_hbond_refined 0.093 r_nbtor_other 0.088 r_bond_refined_d 0.011 r_gen_planes_refined 0.004 r_bond_other_d 0.003 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1267 Nucleic Acid Atoms Solvent Atoms 42 Heterogen Atoms 10
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling PHASER phasing