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Complex crystal structure of Ascaris suum eIF4E-3 with m7G cap
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2V8W
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 5.6 277 20% MMG PEG 2000, 0.2 M (NH4)2SO4, and 100 mM Na-Critate, pH 5.6, VAPOR DIFFUSION, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.66 53.71
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 104.62 α = 90 b = 104.62 β = 90 c = 47.22 γ = 90
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 NOIR-1 2009-02-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 4.2.2 1 ALS 4.2.2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.9 36.99 98.5 0.113 0.113 3.4 5719 2.9
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.9 2.974
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (I) Cut-off Sigma (F) 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 2V8W 2.9 14.92 2.9 1.8 5719 5122 550 98.56 0.298 0.24469 0.23934 0.2383 0.29372 0.2875 RANDOM 43.926
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] -2 -2 4
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.062 r_dihedral_angle_4_deg 21.467 r_dihedral_angle_3_deg 18.155 r_dihedral_angle_1_deg 5.94 r_scangle_it 1.77 r_angle_refined_deg 1.353 r_scbond_it 1.045 r_mcangle_it 1.035 r_mcbond_it 0.551 r_chiral_restr 0.093
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.062 r_dihedral_angle_4_deg 21.467 r_dihedral_angle_3_deg 18.155 r_dihedral_angle_1_deg 5.94 r_scangle_it 1.77 r_angle_refined_deg 1.353 r_scbond_it 1.045 r_mcangle_it 1.035 r_mcbond_it 0.551 r_chiral_restr 0.093 r_bond_refined_d 0.011 r_gen_planes_refined 0.004 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1541 Nucleic Acid Atoms Solvent Atoms 2 Heterogen Atoms 29
Software Software Software Name Purpose d*TREK data scaling PHASES phasing REFMAC refinement d*TREK data reduction