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Crystal structure of the cap free human translation initiation factor eIF4E
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1IPB modified coordinates of pdb entry 1IPB
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 289 20% PEG-3350, 0.2 M diammonium citrate, vapor diffusion, temperature 289K
Crystal Properties Matthews coefficient Solvent content 2.4 49.1
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 39.236 α = 103.61 b = 56.739 β = 91.36 c = 100.31 γ = 110.14
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 315 2011-02-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.97929 APS 19-ID
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 40 97.8 0.05 9.4 1.9 44808
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 2.14 97 0.374 2 2190
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 modified coordinates of pdb entry 1IPB 2.1 30 44671 1342 97.716 0.217 0.2154 0.2187 0.2598 0.2578 THINSHELLS (SFTOOLS) 29.854
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] 0.601 -0.339 0.47 -2.209 0.84 1.792
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.303 r_dihedral_angle_4_deg 15.283 r_dihedral_angle_3_deg 14.044 r_dihedral_angle_1_deg 6.858 r_scangle_it 2.593 r_scbond_it 1.722 r_angle_refined_deg 1.334 r_mcangle_it 1.065 r_angle_other_deg 0.862 r_mcbond_it 0.609
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.303 r_dihedral_angle_4_deg 15.283 r_dihedral_angle_3_deg 14.044 r_dihedral_angle_1_deg 6.858 r_scangle_it 2.593 r_scbond_it 1.722 r_angle_refined_deg 1.334 r_mcangle_it 1.065 r_angle_other_deg 0.862 r_mcbond_it 0.609 r_mcbond_other 0.153 r_chiral_restr 0.081 r_bond_refined_d 0.013 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5581 Nucleic Acid Atoms Solvent Atoms 169 Heterogen Atoms 14
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction HKL-3000 data reduction HKL-3000 data scaling