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Structural tuning of CD81LEL (space group P21)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1G8Q
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5 294.15 Protein: 10 mg/ml
Buffer: 0.1 M MIB pH 5.0,
25% w/v PEG 1500
grown in presence of synthetic claudin-I long-extracellular-loop (CLDN1-EL1) - but not visible in electron density.
cryo-protectant: 25% glycerol + peptide
Crystal Properties Matthews coefficient Solvent content 1.87 34.4
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 31.445 α = 90 b = 75.846 β = 107.12 c = 37.363 γ = 90
Symmetry Space Group P 1 21 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS 6M 2012-11-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 0.972499 ESRF ID23-1
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 1.28 26 88.6 0.062 21.6 5.2 38224 16.1
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.28 1.3 40.9 0.38 0.934 3.4 3.8
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1G8Q 1.28 25.997 1.4 38175 1911 88.3 0.1382 0.1363 0.1404 0.1729 0.1758
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]
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 13.727 f_angle_d 1.18 f_chiral_restr 0.07 f_bond_d 0.01 f_plane_restr 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1361 Nucleic Acid Atoms Solvent Atoms 194 Heterogen Atoms 28
Software Software Software Name Purpose PHENIX refinement DENZO data reduction SCALEPACK data scaling PHASER phasing