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Crystal structure of Nicotiana benthamiana importin alpha-Cucumber mosaic virus (strain FNY) suppressor of silencing 2b NLS peptide complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3OQS
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 291 0.2 M lithium citrate, 35% glycerol
ethoxylate
Crystal Properties Matthews coefficient Solvent content 2.19 43.84
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 62.929 α = 90 b = 77.532 β = 90.16 c = 98.575 γ = 90
Symmetry Space Group P 1 21 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 2M 2012-01-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL17U1 0.9793 SSRF BL17U1
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 98.57 99.7 0.056 29.5 4.2 64065
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 2.048 0.056
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 (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 2 98.57 60824 3241 99.24 0.18843 0.1866 0.2013 0.22281 0.2348 RANDOM 34.788
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] 2.58 1.53 -4.86 2.27
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.968 r_dihedral_angle_4_deg 15.707 r_dihedral_angle_3_deg 15.541 r_long_range_B_refined 5.371 r_long_range_B_other 5.249 r_dihedral_angle_1_deg 4.951 r_scangle_other 2.86 r_mcangle_it 2.443 r_mcangle_other 2.442 r_scbond_it 1.738
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.968 r_dihedral_angle_4_deg 15.707 r_dihedral_angle_3_deg 15.541 r_long_range_B_refined 5.371 r_long_range_B_other 5.249 r_dihedral_angle_1_deg 4.951 r_scangle_other 2.86 r_mcangle_it 2.443 r_mcangle_other 2.442 r_scbond_it 1.738 r_scbond_other 1.738 r_mcbond_it 1.486 r_mcbond_other 1.486 r_angle_refined_deg 1.076 r_angle_other_deg 0.797 r_chiral_restr 0.066 r_bond_refined_d 0.006 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001 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 6694 Nucleic Acid Atoms Solvent Atoms 358 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling BALBES phasing