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Crystal structure of the dengue 2 virus envelope protein
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1OAM PDB ENTRY 1OAM
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8.5 11% PEG 8000, 1 M NACL, 0.1 M TRIS/HCL PH 9.0, 20% GLYCEROL
Crystal Properties Matthews coefficient Solvent content 3.395 63
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 81.541 α = 90 b = 81.541 β = 90 c = 288.623 γ = 120
Symmetry Space Group P 31 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 CCD ADSC CCD 2002-11-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CHESS BEAMLINE F1 CHESS F1
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 2.75 50 90.3 0.079 21.7 10 27029 34.3
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 2.75 2.85 48.8 0.409 2.5 1.4
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 PDB ENTRY 1OAM 2.75 48.1 24851 1281 83.2 0.261 0.261 0.2645 0.296 0.2991 RANDOM 76.1
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] 11.16 3.91 11.16 -22.31
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 25 c_scangle_it 8.36 c_scbond_it 5.87 c_mcangle_it 5.53 c_mcbond_it 3.3 c_angle_deg 1.4 c_improper_angle_d 1.04 c_bond_d 0.009 c_bond_d_na c_bond_d_prot
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 25 c_scangle_it 8.36 c_scbond_it 5.87 c_mcangle_it 5.53 c_mcbond_it 3.3 c_angle_deg 1.4 c_improper_angle_d 1.04 c_bond_d 0.009 c_bond_d_na c_bond_d_prot c_angle_d c_angle_d_na c_angle_d_prot c_angle_deg_na c_angle_deg_prot c_dihedral_angle_d_na c_dihedral_angle_d_prot c_improper_angle_d_na c_improper_angle_d_prot
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6124 Nucleic Acid Atoms Solvent Atoms 45 Heterogen Atoms 127
Software Software Software Name Purpose CNS refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing