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Crystal structure of yeast CRM1 (Xpo1p) in complex with yeast RanBP1 (Yrb1p) and yeast RanGTP (Gsp1pGTP)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1RRP 1RRP, 1W9C, 2H4M experimental model PDB 1W9C 1RRP, 1W9C, 2H4M experimental model PDB 2H4M 1RRP, 1W9C, 2H4M
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.6 293 0.1M Bis-Tris, 0.2M ammonium nitrate, 18% PEG3350, pH 6.6, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.56 51.98
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 106.209 α = 90 b = 106.209 β = 90 c = 303.602 γ = 90
Symmetry Space Group P 43 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 RAYONIX MX225HE 2009-05-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL41XU 1.0 SPring-8 BL41XU
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 45.33 99.9 0.087 0.084 5.7 14.2 118072 117954 35.68
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 2.11 100 0.876 0.834 2.9 10 16944
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 (All) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1RRP, 1W9C, 2H4M 2 43.51 118072 117821 5918 99.9 0.178 0.178 0.175 0.22 0.2343 RANDOM 41.996
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] -0.41 -0.41 0.81
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.142 r_dihedral_angle_4_deg 20.441 r_dihedral_angle_3_deg 17.015 r_dihedral_angle_1_deg 6.44 r_scangle_it 6.217 r_scbond_it 3.9 r_mcangle_it 2.319 r_angle_refined_deg 2.042 r_mcbond_it 1.295 r_chiral_restr 0.207
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.142 r_dihedral_angle_4_deg 20.441 r_dihedral_angle_3_deg 17.015 r_dihedral_angle_1_deg 6.44 r_scangle_it 6.217 r_scbond_it 3.9 r_mcangle_it 2.319 r_angle_refined_deg 2.042 r_mcbond_it 1.295 r_chiral_restr 0.207 r_bond_refined_d 0.026 r_gen_planes_refined 0.011
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 10832 Nucleic Acid Atoms Solvent Atoms 769 Heterogen Atoms 33
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction BSS data collection PROCESS data reduction SCALEPACK data scaling MOLREP phasing