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Neuraminidase of A/Brevig Mission/1/1918 H1N1 strain
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 6.5 295 0.16 M calcium acetate; 0.08 M cacodylate; 14.4% PEG8000; 20% glycerol, pH 6.50, VAPOR DIFFUSION, SITTING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.83 56.48
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 117.728 α = 90 b = 138.472 β = 90 c = 117.86 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 collimating mirror, toroid focusing mirror 2006-12-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 1.00797 SSRL BL9-2
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 1.64 50 97.3 0.093 9.1 4.2 116395 113144
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 1.64 1.68 76.4 0.528 2.8
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 1.64 44.86 107399 5652 97.13 0.18183 0.18031 0.1788 0.21045 0.2093 RANDOM 19.142
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] -1.41 2.57 -1.15
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.096 r_dihedral_angle_3_deg 11.974 r_dihedral_angle_4_deg 10.475 r_dihedral_angle_1_deg 7.042 r_scangle_it 5.354 r_scbond_it 3.776 r_mcangle_it 2.475 r_mcbond_it 1.556 r_angle_refined_deg 1.436 r_symmetry_vdw_other 0.212
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.096 r_dihedral_angle_3_deg 11.974 r_dihedral_angle_4_deg 10.475 r_dihedral_angle_1_deg 7.042 r_scangle_it 5.354 r_scbond_it 3.776 r_mcangle_it 2.475 r_mcbond_it 1.556 r_angle_refined_deg 1.436 r_symmetry_vdw_other 0.212 r_nbd_other 0.202 r_nbd_refined 0.199 r_mcbond_other 0.189 r_nbtor_refined 0.18 r_symmetry_hbond_refined 0.168 r_symmetry_vdw_refined 0.158 r_xyhbond_nbd_refined 0.142 r_chiral_restr 0.102 r_nbtor_other 0.093 r_metal_ion_refined 0.09 r_bond_refined_d 0.013 r_gen_planes_refined 0.007 r_gen_planes_other 0.001 r_bond_other_d r_angle_other_deg 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 754 Heterogen Atoms 154
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data collection