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Crystal Structure of B/Perth Neuraminidase D197E mutant
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3K36 PDB ENTRY 3K36
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 281.15 12-17% w/v PEG 3350, 0.2-0.3M Na2 SO4, 5mM YCl3, VAPOR DIFFUSION, SITTING DROP, temperature 281.15K, PH7
Crystal Properties Matthews coefficient Solvent content 2.43 49.3
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 111.155 α = 90.04 b = 123.683 β = 90.19 c = 123.789 γ = 90.19
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 BEAMLINE OPTICS 2008-05-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX1 0.95364 Australian Synchrotron MX1
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 2.19 61.78 94.6 0.102 8.1 2 316772 316772 -1 -1
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) 2.2 2.32 92.7 0.365 2.6 1.8 45355
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 3K36 2.19 61.78 300686 16084 93.25 0.19247 0.19101 0.21989 0.2146 RANDOM 13.721
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] 39.01 -2.04 6.79 -17.59 -2.21 -21.42
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.392 r_dihedral_angle_3_deg 16.277 r_dihedral_angle_4_deg 13.47 r_dihedral_angle_1_deg 7.098 r_scangle_it 2.163 r_scbond_it 1.698 r_angle_refined_deg 1.506 r_mcangle_it 0.882 r_mcbond_it 0.585 r_chiral_restr 0.103
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.392 r_dihedral_angle_3_deg 16.277 r_dihedral_angle_4_deg 13.47 r_dihedral_angle_1_deg 7.098 r_scangle_it 2.163 r_scbond_it 1.698 r_angle_refined_deg 1.506 r_mcangle_it 0.882 r_mcbond_it 0.585 r_chiral_restr 0.103 r_bond_refined_d 0.017 r_gen_planes_refined 0.007 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 48112 Nucleic Acid Atoms Solvent Atoms 1304 Heterogen Atoms 340
Software Software Software Name Purpose Blu-Ice data collection MOLREP phasing REFMAC refinement MOSFLM data reduction SCALA data scaling