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Crystal structure of the nuclear complex with She2p and the ASH1 mRNA E3-localization element
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1XLY
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 277 100 mM Bis Tris propane, pH 6.5, 200 mM NaF, 20 % (w/v) PEG 3350,
Crystal Properties Matthews coefficient Solvent content 2.72 54.85
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 220.52 α = 90 b = 58.34 β = 126.98 c = 146.01 γ = 90
Symmetry Space Group C 1 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS 6M-F 2015-01-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 1.0716 ESRF ID23-1
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 2.41 100 90.1 0.068 10.37 1.9 49733
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 2.41 2.47 91 0.438 2.13 1.7
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 1XLY 2.41 50.01 49733 2571 90.36 0.19175 0.18946 0.1905 0.23458 0.2356 RANDOM 62.211
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] -1.67 1.52 -1.39 0.36
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.834 r_dihedral_angle_4_deg 22.592 r_dihedral_angle_3_deg 15.59 r_long_range_B_refined 7.762 r_long_range_B_other 7.762 r_dihedral_angle_1_deg 6.968 r_scangle_other 4.857 r_mcangle_it 4.834 r_mcangle_other 4.834 r_mcbond_it 3.075
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.834 r_dihedral_angle_4_deg 22.592 r_dihedral_angle_3_deg 15.59 r_long_range_B_refined 7.762 r_long_range_B_other 7.762 r_dihedral_angle_1_deg 6.968 r_scangle_other 4.857 r_mcangle_it 4.834 r_mcangle_other 4.834 r_mcbond_it 3.075 r_scbond_it 3.066 r_scbond_other 3.066 r_mcbond_other 3.042 r_angle_refined_deg 1.881 r_angle_other_deg 1.716 r_chiral_restr 0.113 r_bond_refined_d 0.018 r_gen_planes_refined 0.013 r_bond_other_d 0.011 r_gen_planes_other 0.01 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7731 Nucleic Acid Atoms 1192 Solvent Atoms 333 Heterogen Atoms 74
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling MOLREP phasing