☰ Navigation Tabs
Mouse E-cadherin EC1-2 L175D mutant
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2QVF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.6 293 25% (v/v) PEG 400, 0.1M sodium acetate pH4.6, 0.15M CaCl2 and croprotected by increasing PEG 400 to 30%., VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 8.43 85.4
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 140.851 α = 90 b = 169.493 β = 90 c = 131.355 γ = 90
Symmetry Space Group C 2 2 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 MAR CCD 165 mm 2009-11-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X4C 0.979 NSLS X4C
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 2.73 40 99.98 0.116 6.9 41348 41339 -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) 2.73 2.85 100 0.505 4.3 6.7 4056
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 2QVF 2.73 20 39137 2089 98.08 0.20243 0.20126 0.1981 0.22436 0.2189 RANDOM 31.296
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] 0.72 -0.12 -0.6
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.68 r_dihedral_angle_4_deg 22.037 r_dihedral_angle_3_deg 16.764 r_dihedral_angle_1_deg 12.07 r_scangle_it 7.077 r_scbond_it 4.041 r_mcangle_it 2.628 r_angle_refined_deg 2.162 r_mcbond_it 1.544 r_chiral_restr 0.128
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.68 r_dihedral_angle_4_deg 22.037 r_dihedral_angle_3_deg 16.764 r_dihedral_angle_1_deg 12.07 r_scangle_it 7.077 r_scbond_it 4.041 r_mcangle_it 2.628 r_angle_refined_deg 2.162 r_mcbond_it 1.544 r_chiral_restr 0.128 r_bond_refined_d 0.026 r_gen_planes_refined 0.01
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3272 Nucleic Acid Atoms Solvent Atoms 279 Heterogen Atoms 34
Software Software Software Name Purpose MAR345 data collection PHASER phasing REFMAC refinement DENZO data reduction SCALEPACK data scaling