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The catalytic mechanism of human parainfluenza virus type 3 haemagglutinin-neuraminidase revealed
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1V3E PDB entry 1V3E
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.6 293 citrate buffer, ammonium sulphate, PEG 3000
Crystal Properties Matthews coefficient Solvent content 2.13 42.37
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 83.43 α = 90 b = 94.015 β = 90 c = 105.395 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 CCD ADSC QUANTUM 210r 2014-01-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE AR-NW12A 1.000 Photon Factory AR-NW12A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.9 20 93.1 17.84 6.7 61796
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 1V3E 1.9 19.78 58659 3088 93.07 0.1643 0.162 0.209 0.1902 RANDOM 23.317
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] 0.18 0.78 -0.96
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.069 r_dihedral_angle_4_deg 15.959 r_dihedral_angle_3_deg 12.882 r_dihedral_angle_1_deg 7.008 r_mcangle_it 2.327 r_mcbond_it 1.429 r_mcbond_other 1.429 r_angle_refined_deg 1.427 r_angle_other_deg 0.778 r_chiral_restr 0.082
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.069 r_dihedral_angle_4_deg 15.959 r_dihedral_angle_3_deg 12.882 r_dihedral_angle_1_deg 7.008 r_mcangle_it 2.327 r_mcbond_it 1.429 r_mcbond_other 1.429 r_angle_refined_deg 1.427 r_angle_other_deg 0.778 r_chiral_restr 0.082 r_bond_refined_d 0.009 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6784 Nucleic Acid Atoms Solvent Atoms 638 Heterogen Atoms 162
Software Software Software Name Purpose REFMAC refinement HKL-2000 data collection XDS data reduction PHASER phasing PDB_EXTRACT data extraction