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crystal structure of the third PDZ domain of the human ZO-1 MAGUK protein
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3LH5 PDB ENTRY 3LH5
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5 293.15 25% PEG 1500, 0.1M MMT, pH 5.0, VAPOR DIFFUSION, SITTING DROP, temperature 293.15K
Crystal Properties Matthews coefficient Solvent content 1.69 27.3
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 34.497 α = 90 b = 45.117 β = 90 c = 59.634 γ = 90
Symmetry Space Group P 21 21 21
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 2011-03-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-BM 1.0 APS 22-BM
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 1.989 35.98 97.8 0.05 15.1 3.2 6649 6649
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 1.989 2.11 93.3 0.61 2.1 3.2 995
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 PDB ENTRY 3LH5 1.989 35.98 5970 5970 663 97.62 0.27326 0.27326 0.26858 0.2684 0.31526 0.3172 RANDOM 36.873
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] -1.63 1.18 0.45
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.914 r_dihedral_angle_4_deg 21.73 r_dihedral_angle_3_deg 18.291 r_dihedral_angle_1_deg 5.928 r_scangle_it 2.367 r_scbond_it 1.347 r_angle_refined_deg 1.165 r_mcangle_it 1.122 r_mcbond_it 0.606 r_chiral_restr 0.072
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.914 r_dihedral_angle_4_deg 21.73 r_dihedral_angle_3_deg 18.291 r_dihedral_angle_1_deg 5.928 r_scangle_it 2.367 r_scbond_it 1.347 r_angle_refined_deg 1.165 r_mcangle_it 1.122 r_mcbond_it 0.606 r_chiral_restr 0.072 r_bond_refined_d 0.009 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 721 Nucleic Acid Atoms Solvent Atoms 32 Heterogen Atoms
Software Software Software Name Purpose SERGUI data collection PHASER phasing REFMAC refinement XDS data reduction XDS data scaling