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Dengue virus 4 NS3 helicase in complex with ssRNA
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2JLQ PDB ENTRY 2JLQ
Crystallization Crystal Properties Matthews coefficient Solvent content 2.03 38.81
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 132.033 α = 90 b = 105.497 β = 117.54 c = 72.517 γ = 90
Symmetry Space Group C 1 2 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 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE
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 29.8 96.5 0.09 17.4 6.4 54798 2
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 2.1 86.4 0.38 4.2 6.2
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 2JLQ 2.04 20 51971 2779 97.77 0.19935 0.19707 0.24198 0.256 RANDOM 24.244
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] 0.92 0.5 -0.86 0.41
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.862 r_dihedral_angle_3_deg 16.922 r_dihedral_angle_4_deg 14.838 r_dihedral_angle_1_deg 6.01 r_scangle_it 2.445 r_scbond_it 1.522 r_angle_refined_deg 1.329 r_mcangle_it 1.083 r_mcbond_it 0.635 r_nbtor_refined 0.301
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.862 r_dihedral_angle_3_deg 16.922 r_dihedral_angle_4_deg 14.838 r_dihedral_angle_1_deg 6.01 r_scangle_it 2.445 r_scbond_it 1.522 r_angle_refined_deg 1.329 r_mcangle_it 1.083 r_mcbond_it 0.635 r_nbtor_refined 0.301 r_xyhbond_nbd_refined 0.279 r_symmetry_vdw_refined 0.255 r_nbd_refined 0.199 r_symmetry_hbond_refined 0.196 r_chiral_restr 0.092 r_bond_refined_d 0.011 r_gen_planes_refined 0.004 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other 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 7208 Nucleic Acid Atoms 256 Solvent Atoms 407 Heterogen Atoms 24
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing