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The crystal structure of the Exon Junction Complex at 2.2 A resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1FUU PDB ENTRY 1FUU, 1FUK, 1P27 experimental model PDB 1FUK PDB ENTRY 1FUU, 1FUK, 1P27 experimental model PDB 1P27 PDB ENTRY 1FUU, 1FUK, 1P27
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8% PEG 6000, 100 MM MGCL2, 100 MM MES PH 6.0
Crystal Properties Matthews coefficient Solvent content 3.05 59.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 169.44 α = 90 b = 169.44 β = 90 c = 71.04 γ = 120
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 MARRESEARCH 2006-06-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA SLS X06SA
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 2.2 50 98.9 0.08 0.08 11.1 3.6 58631 2.5
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.2 2.3 95.6 0.54 0.54 2.5 2.9
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 1FUU, 1FUK, 1P27 2.21 43.73 55698 2932 100 0.187 0.185 0.238 0.216 0.2649 RANDOM 43.99
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] -0.33 -0.16 -0.33 0.49
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.31 r_dihedral_angle_4_deg 19.794 r_dihedral_angle_3_deg 16.902 r_dihedral_angle_1_deg 6.456 r_scangle_it 2.724 r_scbond_it 1.746 r_angle_refined_deg 1.493 r_mcangle_it 1.148 r_angle_other_deg 0.843 r_mcbond_it 0.806
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.31 r_dihedral_angle_4_deg 19.794 r_dihedral_angle_3_deg 16.902 r_dihedral_angle_1_deg 6.456 r_scangle_it 2.724 r_scbond_it 1.746 r_angle_refined_deg 1.493 r_mcangle_it 1.148 r_angle_other_deg 0.843 r_mcbond_it 0.806 r_symmetry_vdw_other 0.27 r_xyhbond_nbd_refined 0.225 r_nbd_refined 0.195 r_nbd_other 0.191 r_nbtor_refined 0.178 r_mcbond_other 0.151 r_symmetry_hbond_refined 0.148 r_symmetry_vdw_refined 0.111 r_nbtor_other 0.088 r_chiral_restr 0.085 r_metal_ion_refined 0.039 r_bond_refined_d 0.014 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_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 5359 Nucleic Acid Atoms 121 Solvent Atoms 344 Heterogen Atoms 32
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing