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Neuraminidase of A/Brevig Mission/1/1918 H1N1 strain in complex with zanamivir
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2HTY PDB ENTRY 2HTY
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.3 295 20% PEG3000, pH 7.30, VAPOR DIFFUSION, SITTING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.67 53.88
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 118.044 α = 90 b = 129.247 β = 90 c = 118.845 γ = 90
Symmetry Space Group C 2 2 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 MARMOSAIC 325 mm CCD Flat mirror; single crystal Si(111) bent monochromator 2007-03-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL11-1 0.97945 SSRL BL11-1
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 1.45 50 97.6 0.096 8.5 6.8 160198 155978
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 1.45 1.49 86.3 0.527 5.6
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 2HTY 1.45 29.71 148122 7807 97.54 0.14114 0.14014 0.1464 0.16015 0.1649 RANDOM 9.675
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] -0.61 1.1 -0.49
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.515 r_dihedral_angle_4_deg 12.932 r_dihedral_angle_3_deg 11.564 r_dihedral_angle_1_deg 7.308 r_scangle_it 4.161 r_scbond_it 3.049 r_mcangle_it 1.873 r_angle_refined_deg 1.441 r_mcbond_it 1.318 r_angle_other_deg 0.937
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.515 r_dihedral_angle_4_deg 12.932 r_dihedral_angle_3_deg 11.564 r_dihedral_angle_1_deg 7.308 r_scangle_it 4.161 r_scbond_it 3.049 r_mcangle_it 1.873 r_angle_refined_deg 1.441 r_mcbond_it 1.318 r_angle_other_deg 0.937 r_mcbond_other 0.423 r_symmetry_vdw_other 0.246 r_nbd_other 0.207 r_nbd_refined 0.199 r_nbtor_refined 0.178 r_symmetry_hbond_refined 0.153 r_xyhbond_nbd_refined 0.135 r_symmetry_vdw_refined 0.13 r_nbtor_other 0.092 r_chiral_restr 0.088 r_metal_ion_refined 0.069 r_bond_refined_d 0.013 r_gen_planes_refined 0.007 r_bond_other_d 0.006 r_gen_planes_other 0.002 r_xyhbond_nbd_other r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5928 Nucleic Acid Atoms Solvent Atoms 939 Heterogen Atoms 143
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data collection