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Crystal structure of recombinant 4E10 expressed in Escherichia coli with epitope bound
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2FX7
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 293.15 200 mM sodium acetate
30% PEG 8,000
100 mM sodium cacodylate
Protein was prepared in PBS
Crystal Properties Matthews coefficient Solvent content 2.77 55.58
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 157.3 α = 90 b = 44.58 β = 113.8 c = 85.4 γ = 90
Symmetry Space Group C 1 2 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 CCD ADSC QUANTUM 315r 2014-06-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE BL-5A 1.000 Photon Factory BL-5A
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 2.1 44.7 94.2 0.102 14 5.5 30114
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 2.1 2.21 76.6 0.37 4.3 5.3
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 2FX7 2.1 44.7 28584 1530 93.89 0.16397 0.16169 0.1745 0.2072 0.2165 RANDOM 31.78
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] -0.66 0.5 -1.13 0.97
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.362 r_dihedral_angle_4_deg 19.933 r_dihedral_angle_3_deg 12.811 r_dihedral_angle_1_deg 8.044 r_long_range_B_refined 5.948 r_long_range_B_other 5.847 r_scangle_other 3.949 r_mcangle_it 2.959 r_mcangle_other 2.959 r_scbond_it 2.54
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.362 r_dihedral_angle_4_deg 19.933 r_dihedral_angle_3_deg 12.811 r_dihedral_angle_1_deg 8.044 r_long_range_B_refined 5.948 r_long_range_B_other 5.847 r_scangle_other 3.949 r_mcangle_it 2.959 r_mcangle_other 2.959 r_scbond_it 2.54 r_scbond_other 2.54 r_mcbond_it 1.96 r_mcbond_other 1.959 r_angle_refined_deg 1.526 r_angle_other_deg 0.764 r_chiral_restr 0.088 r_bond_refined_d 0.013 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3406 Nucleic Acid Atoms Solvent Atoms 304 Heterogen Atoms 12
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing Coot model building