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Crystallographic and mass spectrometric characterisation of eIF4E with N7-cap derivatives
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1EJH PDB ENTRY 1EJH
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7 25% PEG 6000, 7% AMMONIUM SULPHATE, 100MM HEPES-KOH PH 7.0
Crystal Properties Matthews coefficient Solvent content 2.62 53.08
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 38.438 α = 90 b = 100.731 β = 90 c = 135.334 γ = 90
Symmetry Space Group P 21 21 21
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 CCD MIRRORS M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SRS BEAMLINE PX14.1 SRS PX14.1
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 2.1 41.17 91.1 0.12 2 3.9 28510 2
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 87.6 0.53 2.3 3.9
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 1EJH 2.1 25.3 27012 1468 90.2 0.206 0.203 0.1973 0.25 0.243 RANDOM 24.21
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] 0.07 -0.1 0.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.172 r_dihedral_angle_4_deg 17.81 r_dihedral_angle_3_deg 17.724 r_dihedral_angle_1_deg 7.099 r_scangle_it 3.663 r_scbond_it 2.357 r_mcangle_it 1.7 r_angle_refined_deg 1.637 r_mcbond_it 0.993 r_symmetry_hbond_refined 0.322
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.172 r_dihedral_angle_4_deg 17.81 r_dihedral_angle_3_deg 17.724 r_dihedral_angle_1_deg 7.099 r_scangle_it 3.663 r_scbond_it 2.357 r_mcangle_it 1.7 r_angle_refined_deg 1.637 r_mcbond_it 0.993 r_symmetry_hbond_refined 0.322 r_nbtor_refined 0.304 r_symmetry_vdw_refined 0.254 r_xyhbond_nbd_refined 0.244 r_nbd_refined 0.222 r_chiral_restr 0.133 r_bond_refined_d 0.016 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3246 Nucleic Acid Atoms Solvent Atoms 312 Heterogen Atoms 64
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling MOLREP phasing