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The crystal structure of MERS-CoV Main protease in complex with inhibitor FD2-21
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7ENE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 289.15 0.05 M Magnesium chloride hexahydrate, 0.1 M HEPES pH 7.5, 30% v/v Polyethylene glycol monomethyl ether 550
Crystal Properties Matthews coefficient Solvent content 2.65 53.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 63.53 α = 90 b = 91.13 β = 96.54 c = 122.03 γ = 90
Symmetry Space Group P 1 21 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 80 PIXEL DECTRIS EIGER2 S 9M 2025-09-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL02U1 0.979 SSRF BL02U1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) CC (Half) 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 2.53 36.04 99.8 0.103 0.997 12.5 6.7 43782
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.53 2.62 0.609
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 2.53 36.02 43782 2387 99.69 0.25116 0.24855 0.2504 0.29773 0.3026 RANDOM 69.896
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] 0.06 0.09 -0.07 -0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 8.583 r_long_range_B_refined 6.178 r_long_range_B_other 6.11 r_dihedral_angle_1_deg 4.779 r_mcangle_it 2.398 r_mcangle_other 2.398 r_scangle_other 1.745 r_dihedral_angle_2_deg 1.469 r_mcbond_it 1.309 r_mcbond_other 1.309
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 8.583 r_long_range_B_refined 6.178 r_long_range_B_other 6.11 r_dihedral_angle_1_deg 4.779 r_mcangle_it 2.398 r_mcangle_other 2.398 r_scangle_other 1.745 r_dihedral_angle_2_deg 1.469 r_mcbond_it 1.309 r_mcbond_other 1.309 r_scbond_it 0.93 r_scbond_other 0.93 r_angle_refined_deg 0.634 r_angle_other_deg 0.256 r_chiral_restr 0.03 r_bond_refined_d 0.002 r_gen_planes_refined 0.002 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_dihedral_angle_4_deg 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9227 Nucleic Acid Atoms Solvent Atoms 338 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling PHASER phasing