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Crystal structure of NL63 respiratory coronavirus receptor-binding domain complexed with its human receptor
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.5 285 20% PEG 6000, 100 mM Na citrate pH 5.5, VAPOR DIFFUSION, SITTING DROP, temperature 285K
Crystal Properties Matthews coefficient Solvent content 2.83 56.58
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 77.764 α = 90 b = 77.764 β = 90 c = 631.095 γ = 90
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 315r 2009-03-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 1.255 APS 19-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 3.3 50 99 0.076 0.135 4.3 54947
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3.3 3.42 98.5 0.351 0.687 2.6 4.2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 3.31 49.01 52522 2800 99.88 0.26979 0.26817 0.2625 0.29973 0.2895 RANDOM 46.249
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] 6.65 6.65 -13.3
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.128 r_dihedral_angle_3_deg 22.385 r_dihedral_angle_4_deg 19.116 r_dihedral_angle_1_deg 7.398 r_scangle_it 2.456 r_angle_refined_deg 1.577 r_scbond_it 1.393 r_mcangle_it 0.559 r_mcbond_it 0.278 r_chiral_restr 0.111
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.128 r_dihedral_angle_3_deg 22.385 r_dihedral_angle_4_deg 19.116 r_dihedral_angle_1_deg 7.398 r_scangle_it 2.456 r_angle_refined_deg 1.577 r_scbond_it 1.393 r_mcangle_it 0.559 r_mcbond_it 0.278 r_chiral_restr 0.111 r_bond_refined_d 0.014 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 22800 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 224
Software Software Software Name Purpose HKL-3000 data collection AMoRE phasing REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling