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crystal structure of the PDZ3-SH3-GUK core module of Human ZO-1
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, HANGING DROP 5 293.15 1.2M AmSO4, 0.1M NaAc pH 5.0, 60mM NaF, VAPOR DIFFUSION, HANGING DROP, temperature 293.15K
Crystal Properties Matthews coefficient Solvent content 2.99 58.82
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 100.634 α = 90 b = 100.634 β = 90 c = 182.516 γ = 120
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 2010-11-20 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 2.83 87.17 97.6 0.089 17.08 5.6 47918 47918
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 2.83 3 86.9 0.976 1.87 4.2 6860
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 2.847 87.17 41930 41930 4709 96.23 0.21848 0.21848 0.21054 0.1896 0.28972 0.2521 RANDOM 71.427
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] 25.4 25.4 -50.79
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.948 r_dihedral_angle_3_deg 23.344 r_dihedral_angle_4_deg 22.697 r_dihedral_angle_1_deg 7.908 r_scangle_it 2.003 r_angle_refined_deg 1.565 r_scbond_it 1.195 r_mcangle_it 0.906 r_mcbond_it 0.485 r_chiral_restr 0.104
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.948 r_dihedral_angle_3_deg 23.344 r_dihedral_angle_4_deg 22.697 r_dihedral_angle_1_deg 7.908 r_scangle_it 2.003 r_angle_refined_deg 1.565 r_scbond_it 1.195 r_mcangle_it 0.906 r_mcbond_it 0.485 r_chiral_restr 0.104 r_bond_refined_d 0.012 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8532 Nucleic Acid Atoms Solvent Atoms 70 Heterogen Atoms 35
Software Software Software Name Purpose SERGUI data collection PHASER phasing REFMAC refinement XDS data reduction XDS data scaling