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The crystal structure of the RanGDP-Nup153ZnF2 complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other RanGDP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.5 293 2 M ammonium sulfate, 0.1 M Bis Tris, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.71 54.57
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 69.7 α = 90 b = 75.35 β = 90 c = 123.05 γ = 90
Symmetry Space Group I 2 2 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 MAR CCD 165 mm M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 1.2726 SLS X10SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.1 19.76 98.2 0.06 16.1 4.5 18026 18026 13.468
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 2.1 2.2 99.9 0.31 0.354 6.31 4.4 2477
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 RanGDP 2.1 19.76 18026 18026 949 100 0.19821 0.19629 0.1973 0.23443 0.23 RANDOM 36.494
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] -1.32 2.92 -1.6
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.235 r_dihedral_angle_3_deg 18.353 r_dihedral_angle_4_deg 13.087 r_dihedral_angle_1_deg 6.993 r_scangle_it 2.8 r_scbond_it 1.841 r_angle_refined_deg 1.674 r_mcangle_it 1.234 r_mcbond_it 0.751 r_nbtor_refined 0.313
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.235 r_dihedral_angle_3_deg 18.353 r_dihedral_angle_4_deg 13.087 r_dihedral_angle_1_deg 6.993 r_scangle_it 2.8 r_scbond_it 1.841 r_angle_refined_deg 1.674 r_mcangle_it 1.234 r_mcbond_it 0.751 r_nbtor_refined 0.313 r_symmetry_hbond_refined 0.302 r_nbd_refined 0.226 r_symmetry_vdw_refined 0.221 r_xyhbond_nbd_refined 0.147 r_chiral_restr 0.13 r_bond_refined_d 0.014 r_metal_ion_refined 0.01 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_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 1820 Nucleic Acid Atoms Solvent Atoms 71 Heterogen Atoms 35
Software Software Software Name Purpose MAR345dtb data collection MOLREP phasing REFMAC refinement XDS data reduction XDS data scaling