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Crystal Structure of the Rift Valley Fever Virus Nucleocapsid Protein
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.5 277.15 26% PEG 3350, 100 mM Na/K phosphate pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 277.15K
Crystal Properties Matthews coefficient Solvent content 2.82 56.39
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 67.11 α = 78.45 b = 69.63 β = 69.72 c = 80.62 γ = 60.97
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 300 mm CCD K-B pair of biomorph mirrors for vertical and horizontal focusing 2009-06-03 M MAD 2 1 x-ray 100 CCD MARMOSAIC 300 mm CCD K-B pair of biomorph mirrors for vertical and horizontal focusing 2009-12-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-B 0.9794,0.9796 APS 23-ID-B 2 SYNCHROTRON APS BEAMLINE 23-ID-D 1.033 APS 23-ID-D
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 1.93 50 97.1 0.08 9.6 4 90337 87736 2 3 26.3
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) 1.93 2.03 95.7 0.43 3.1 3.9 12642
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-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 1.93 46.51 83342 4393 97.1 0.21361 0.21361 0.2115 0.25428 0.2677 RANDOM 24.134
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] 1.03 -0.08 -0.48 -1.18 0.23 0.47
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.996 r_dihedral_angle_4_deg 18.381 r_dihedral_angle_3_deg 13.777 r_dihedral_angle_1_deg 5.252 r_scangle_it 3.672 r_scbond_it 2.297 r_mcangle_it 1.538 r_angle_refined_deg 1.293 r_angle_other_deg 0.902 r_mcbond_it 0.851
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.996 r_dihedral_angle_4_deg 18.381 r_dihedral_angle_3_deg 13.777 r_dihedral_angle_1_deg 5.252 r_scangle_it 3.672 r_scbond_it 2.297 r_mcangle_it 1.538 r_angle_refined_deg 1.293 r_angle_other_deg 0.902 r_mcbond_it 0.851 r_mcbond_other 0.196 r_chiral_restr 0.077 r_bond_refined_d 0.013 r_gen_planes_refined 0.006 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7557 Nucleic Acid Atoms Solvent Atoms 616 Heterogen Atoms 24
Software Software Software Name Purpose Blu-Ice data collection PHASER phasing REFMAC refinement MOSFLM data reduction SCALA data scaling