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Insertion Mutant E173GP174 of the NS3 protease-helicase from dengue virus
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2VBC PDB ENTRY 2VBC
Crystallization Crystal Properties Matthews coefficient Solvent content 2.67 53.51
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 52.42 α = 90 b = 87.72 β = 92.9 c = 75.779 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 MARRESEARCH M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06DA SLS X06DA
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 2.8 30 99.9 0.11 8.5 4.1 17435 2.3
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 2.8 2.95 100 0.56 2.3 4.1
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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 2VBC 2.8 30 2.3 16538 881 100 0.22 0.22 0.2683 0.288 0.3011 RANDOM 24.2
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] -3.81 -2.3 -1.89 5.43
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.205 r_dihedral_angle_3_deg 21.028 r_dihedral_angle_4_deg 16.341 r_dihedral_angle_1_deg 6.377 r_scangle_it 1.695 r_angle_refined_deg 1.305 r_scbond_it 0.994 r_mcangle_it 0.707 r_mcbond_it 0.374 r_chiral_restr 0.085
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.205 r_dihedral_angle_3_deg 21.028 r_dihedral_angle_4_deg 16.341 r_dihedral_angle_1_deg 6.377 r_scangle_it 1.695 r_angle_refined_deg 1.305 r_scbond_it 0.994 r_mcangle_it 0.707 r_mcbond_it 0.374 r_chiral_restr 0.085 r_bond_refined_d 0.01 r_gen_planes_refined 0.005 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_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 4629 Nucleic Acid Atoms Solvent Atoms 25 Heterogen Atoms 7
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing