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Crystal structure of p120 catenin in complex with E-cadherin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3L6X PDB entry 3L6X
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.4 293 0.1 M HEPES, 8% (w/v) PEG-8000, pH 7.4, vapor diffusion, hanging drop, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.79 55.9
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 106.177 α = 90 b = 106.177 β = 90 c = 173.207 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 SBC-3 2008-10-24 SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-BM 1.0 APS 19-BM
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 3 50 99.6 0.063 11.1 5.4 43627 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3 3.05 100 0.331 5.12 5.6 2210
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) 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 PDB entry 3L6X 3 35 43284 2177 99.02 0.233 0.232 0.2253 0.264 0.2555 RANDOM 55.381
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] 4.23 2.11 4.23 -6.34
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.64 r_dihedral_angle_4_deg 19.874 r_dihedral_angle_3_deg 18.174 r_dihedral_angle_1_deg 4.973 r_scangle_it 2.489 r_scbond_it 1.388 r_angle_refined_deg 1.363 r_mcangle_it 0.845 r_mcbond_it 0.423 r_chiral_restr 0.09
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.64 r_dihedral_angle_4_deg 19.874 r_dihedral_angle_3_deg 18.174 r_dihedral_angle_1_deg 4.973 r_scangle_it 2.489 r_scbond_it 1.388 r_angle_refined_deg 1.363 r_mcangle_it 0.845 r_mcbond_it 0.423 r_chiral_restr 0.09 r_bond_refined_d 0.012 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9046 Nucleic Acid Atoms Solvent Atoms 53 Heterogen Atoms
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction HKL-3000 data collection HKL-2000 data reduction HKL-2000 data scaling