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Crystal structure of tetramer of La Crosse virus nucleoprotein in complex with ssRNA
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4BGP PDB ENTRY 4BGP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 9 0.1 M BICINE PH 9 AND 10% PEG 5K MME PROTEIN:RNA RATIO 4:1.2
Crystal Properties Matthews coefficient Solvent content 2.78 55.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 82.95 α = 90 b = 86.46 β = 106.63 c = 90.19 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 CCD MARMOSAIC 225 mm CCD 2012-11-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-2 ESRF ID23-2
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 3.4 50 99.6 0.18 6.89 3.4 18433
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 3.4 3.5 99.6 0.79 1.89 3.4
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 PDB ENTRY 4BGP 3.4 44.35 16130 867 99.7 0.20098 0.19827 0.2021 0.25213 0.2589 RANDOM 83.212
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] -8.05 1.55 -5.29 10.93
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.065 r_dihedral_angle_3_deg 16.572 r_dihedral_angle_4_deg 12.848 r_dihedral_angle_1_deg 6.386 r_angle_refined_deg 1.12 r_angle_other_deg 0.864 r_chiral_restr 0.067 r_bond_refined_d 0.007 r_bond_other_d 0.004 r_gen_planes_refined 0.004
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.065 r_dihedral_angle_3_deg 16.572 r_dihedral_angle_4_deg 12.848 r_dihedral_angle_1_deg 6.386 r_angle_refined_deg 1.12 r_angle_other_deg 0.864 r_chiral_restr 0.067 r_bond_refined_d 0.007 r_bond_other_d 0.004 r_gen_planes_refined 0.004 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_mcbond_it r_mcbond_other r_mcangle_it r_mcangle_other r_scbond_it r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7282 Nucleic Acid Atoms 877 Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing