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Human coronavirus 229E non structural protein 9 cys69ala mutant (Nsp9)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1QZ8 PDB ENTRY 1QZ8
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 4.5 0.1M NA ACETATE PH 4.6 30% PEG MME 2000
Crystal Properties Matthews coefficient Solvent content 1.85 33.08
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 26.396 α = 90 b = 61.377 β = 90 c = 107.309 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 MARRESEARCH MIRRORS 2006-03-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X13 EMBL/DESY, HAMBURG X13
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 1.74 30 94 0.08 26.9 8 17889 2 36.7
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 1.74 1.8 44.6 0.5 3.07 4.1
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 1QZ8 1.8 53.68 15696 1125 99.4 0.218 0.214 0.2199 0.278 0.2743 RANDOM 34.8
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] -0.99 -0.52 1.51
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.397 r_dihedral_angle_4_deg 24.52 r_dihedral_angle_3_deg 18.044 r_dihedral_angle_1_deg 6.958 r_scangle_it 4.153 r_scbond_it 2.921 r_mcangle_it 1.735 r_angle_refined_deg 1.639 r_mcbond_it 1.07 r_symmetry_hbond_refined 0.382
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.397 r_dihedral_angle_4_deg 24.52 r_dihedral_angle_3_deg 18.044 r_dihedral_angle_1_deg 6.958 r_scangle_it 4.153 r_scbond_it 2.921 r_mcangle_it 1.735 r_angle_refined_deg 1.639 r_mcbond_it 1.07 r_symmetry_hbond_refined 0.382 r_nbtor_refined 0.319 r_symmetry_vdw_refined 0.279 r_nbd_refined 0.23 r_xyhbond_nbd_refined 0.165 r_chiral_restr 0.121 r_bond_refined_d 0.016 r_gen_planes_refined 0.007 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1605 Nucleic Acid Atoms Solvent Atoms 74 Heterogen Atoms 8
Software Software Software Name Purpose REFMAC refinement HKL data reduction SCALEPACK data scaling PHASER phasing