☰ Navigation Tabs
The crystal structure of the C-terminal domain of Ebola (Tai Forest) nucleoprotein
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4QB0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.64 293 Crystallization conditions: 10% PEG 3350, 0.1 M Tris-HCl/HEPES pH 8.64. 1:1 ratio of precipitant solution to protein, with a protein concentration of 5.0 mg/mL. There was a 1.5 M NaCl alternative reservoir
Crystal Properties Matthews coefficient Solvent content 2.26 45.68
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 57.847 α = 69.15 b = 60.075 β = 68.93 c = 73.547 γ = 89.93
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 ADSC QUANTUM 315r 2014-11-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.979 APS 19-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 50 96.1 0.07 0.096 0.065 7.8 2.1 48426
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.1 2.14 84.6 0.316 0.436 0.299 0.789 2 2124
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 4QB0 2.1 50 45777 2235 96.2 0.1946 0.1914 0.1979 0.2597 0.2638 RANDOM 41.867
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] -2.73 0.17 -0.64 -1.22 -0.83 1.63
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.132 r_dihedral_angle_3_deg 13.126 r_dihedral_angle_4_deg 10.349 r_mcangle_it 5.328 r_dihedral_angle_1_deg 5.271 r_mcbond_it 4.279 r_mcbond_other 4.275 r_angle_refined_deg 1.092 r_angle_other_deg 0.894 r_chiral_restr 0.064
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.132 r_dihedral_angle_3_deg 13.126 r_dihedral_angle_4_deg 10.349 r_mcangle_it 5.328 r_dihedral_angle_1_deg 5.271 r_mcbond_it 4.279 r_mcbond_other 4.275 r_angle_refined_deg 1.092 r_angle_other_deg 0.894 r_chiral_restr 0.064 r_bond_refined_d 0.007 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6732 Nucleic Acid Atoms Solvent Atoms 664 Heterogen Atoms 73
Software Software Software Name Purpose REFMAC refinement SBC-Collect data collection SCALEPACK data scaling HKL-3000 data reduction MOLREP phasing Coot model building PDB_EXTRACT data extraction