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Crystal structure of hiNES2 in complex with Xpo1 and RanGTP
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3WYG
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.4 293 Tris, PEG 20K, magnesium acetate
Crystal Properties Matthews coefficient Solvent content 2.95 58.38
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 97.355 α = 82.08 b = 105.572 β = 86.668 c = 170.4 γ = 76.668
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 PSI PILATUS 6M 2019-05-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 1.0 SLS X10SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) CC (Half) 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 3 84.36 96.47 0.1386 0.8256 8.05 3.41 126263
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3 3.05 94.69 0.995 0.606 0.8 3.2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 3 82.792 126233 6264 96.405 0.219 0.2177 0.2175 0.2469 0.2468 79.868
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] -0.12 -1.416 2.28 -0.602 -0.887 0.015
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 17.232 r_dihedral_angle_3_deg 17.143 r_lrange_it 9.011 r_dihedral_angle_1_deg 5.366 r_scangle_it 3.527 r_mcangle_it 3.145 r_dihedral_angle_2_deg 2.747 r_scbond_it 2.122 r_mcbond_it 1.866 r_angle_refined_deg 1.148
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 17.232 r_dihedral_angle_3_deg 17.143 r_lrange_it 9.011 r_dihedral_angle_1_deg 5.366 r_scangle_it 3.527 r_mcangle_it 3.145 r_dihedral_angle_2_deg 2.747 r_scbond_it 2.122 r_mcbond_it 1.866 r_angle_refined_deg 1.148 r_symmetry_nbd_refined 0.356 r_nbtor_refined 0.314 r_nbd_refined 0.222 r_symmetry_xyhbond_nbd_refined 0.203 r_ncsr_local_group_14 0.18 r_ncsr_local_group_16 0.178 r_ncsr_local_group_18 0.168 r_ncsr_local_group_15 0.161 r_xyhbond_nbd_refined 0.16 r_ncsr_local_group_17 0.14 r_ncsr_local_group_13 0.131 r_ncsr_local_group_5 0.112 r_ncsr_local_group_9 0.11 r_ncsr_local_group_6 0.109 r_ncsr_local_group_12 0.108 r_ncsr_local_group_10 0.106 r_ncsr_local_group_2 0.103 r_ncsr_local_group_7 0.097 r_ncsr_local_group_11 0.096 r_ncsr_local_group_3 0.094 r_ncsr_local_group_8 0.091 r_chiral_restr 0.087 r_ncsr_local_group_4 0.084 r_ncsr_local_group_1 0.073 r_gen_planes_refined 0.006 r_bond_refined_d 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 38872 Nucleic Acid Atoms Solvent Atoms 209 Heterogen Atoms 148
Software Software Software Name Purpose REFMAC refinement Coot model building DIALS data reduction DIALS data scaling PHASER phasing