☰ Navigation Tabs
PanDDA analysis group deposition of ground-state model of Zika Virus NS3 Helicase
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6MH3 6mh3
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 298
Crystal Properties Matthews coefficient Solvent content 2.16 42.92
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 53.461 α = 90 b = 69.011 β = 92.05 c = 57.222 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 2018-09-29 SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I02 0.91587 Diamond I02
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) 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 1.36 57.19 96.1 0.039 0.046 0.025 0.999 12.5 2.8 86412
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 1.36 1.43 78.3 0.737 0.983 0.644 0.472 1.6 10248
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 FOURIER SYNTHESIS THROUGHOUT 6mh3 1.36 57.25 82144 4245 96.01 0.1721 0.1705 0.1757 0.2049 0.2088 RANDOM 21.833
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] 0.08 -0.02 -0.14 0.06
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.989 r_dihedral_angle_3_deg 12.711 r_dihedral_angle_4_deg 12.509 r_dihedral_angle_1_deg 5.984 r_mcangle_it 3.029 r_angle_refined_deg 2.255 r_mcbond_other 2.117 r_mcbond_it 2.116 r_angle_other_deg 1.173 r_chiral_restr 0.162
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.989 r_dihedral_angle_3_deg 12.711 r_dihedral_angle_4_deg 12.509 r_dihedral_angle_1_deg 5.984 r_mcangle_it 3.029 r_angle_refined_deg 2.255 r_mcbond_other 2.117 r_mcbond_it 2.116 r_angle_other_deg 1.173 r_chiral_restr 0.162 r_bond_refined_d 0.024 r_gen_planes_refined 0.012 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3425 Nucleic Acid Atoms Solvent Atoms 421 Heterogen Atoms 22
Software Software Software Name Purpose REFMAC refinement Aimless data scaling PDB_EXTRACT data extraction XDS data reduction REFMAC phasing