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Structure of NS1 effector domain
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2GX9 PDBid: 2GX9
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 Batch 5.5 298 20% (w/v) PEG400, 0.1M CH3COONa (pH5.5), 0.1M MgSO4, Batch, temperature 298K
Crystal Properties Matthews coefficient Solvent content 3.53 65.12
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 47.924 α = 90 b = 61.456 β = 90 c = 132.13 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE MAR scanner 345 mm plate VariMax 2008-05-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 1.5418
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 2.13 30 87.7 0.066 28.48 6.1 19831 19831
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) 2.13 2.21 29.7 0.229 2.6 3.4 661
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 THROUGHOUT PDBid: 2GX9 2.14 30 18722 956 84.33 0.199 0.198 0.234 0.223 RANDOM 44.67
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] 0.65 1.17 -1.81
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.839 r_dihedral_angle_4_deg 16.493 r_dihedral_angle_3_deg 14.221 r_dihedral_angle_1_deg 6.27 r_scangle_it 6.174 r_scbond_it 4.518 r_mcangle_it 2.841 r_mcbond_it 2.259 r_angle_refined_deg 1.236 r_angle_other_deg 0.816
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.839 r_dihedral_angle_4_deg 16.493 r_dihedral_angle_3_deg 14.221 r_dihedral_angle_1_deg 6.27 r_scangle_it 6.174 r_scbond_it 4.518 r_mcangle_it 2.841 r_mcbond_it 2.259 r_angle_refined_deg 1.236 r_angle_other_deg 0.816 r_mcbond_other 0.356 r_symmetry_vdw_refined 0.278 r_nbd_other 0.193 r_nbd_refined 0.192 r_symmetry_vdw_other 0.185 r_nbtor_refined 0.171 r_symmetry_hbond_refined 0.16 r_xyhbond_nbd_refined 0.139 r_nbtor_other 0.085 r_chiral_restr 0.073 r_bond_refined_d 0.011 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 1909 Nucleic Acid Atoms Solvent Atoms 143 Heterogen Atoms 10
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction MAR345dtb data collection MOLREP phasing