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Crystal structure of Schistosome eIF4E complexed with m7GpppG and 4E-BP
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, HANGING DROP 6.5 277 100mM pH 6.5 Mops, 20% PEG4K, 0.2M MgCl2, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.15 42.74
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 45.311 α = 90 b = 125.33 β = 90 c = 37.33 γ = 90
Symmetry Space Group P 21 21 2
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 2008-12-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 4.2.2 1.5 ALS 4.2.2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.8 24 4 22977
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 2v8w 1.8 24 17407 1969 94.46 0.22355 0.21831 0.2223 0.27158 0.2783 RANDOM 23.342
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] -0.38 -1 1.38
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.598 r_dihedral_angle_4_deg 14.068 r_dihedral_angle_3_deg 12.815 r_dihedral_angle_1_deg 6.063 r_scangle_it 3.328 r_scbond_it 2.17 r_mcangle_it 1.523 r_angle_refined_deg 1.348 r_mcbond_it 1.003 r_nbtor_refined 0.306
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.598 r_dihedral_angle_4_deg 14.068 r_dihedral_angle_3_deg 12.815 r_dihedral_angle_1_deg 6.063 r_scangle_it 3.328 r_scbond_it 2.17 r_mcangle_it 1.523 r_angle_refined_deg 1.348 r_mcbond_it 1.003 r_nbtor_refined 0.306 r_symmetry_vdw_refined 0.199 r_nbd_refined 0.192 r_symmetry_hbond_refined 0.104 r_xyhbond_nbd_refined 0.101 r_chiral_restr 0.087 r_bond_refined_d 0.011 r_gen_planes_refined 0.005 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1645 Nucleic Acid Atoms Solvent Atoms 112 Heterogen Atoms 52
Software Software Software Name Purpose PHASES phasing REFMAC refinement d*TREK data reduction d*TREK data scaling