1P9S

Coronavirus Main Proteinase (3CLpro) Structure: Basis for Design of anti-SARS Drugs


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP8.5283PEG 10000, 1,6-hexanediol, DTT, HEPES, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 283K
Crystal Properties
Matthew coefficientSolvent content
2.1843.55

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 53.356α = 90
b = 76.24β = 103.7
c = 73.477γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATEMARRESEARCH2000-01-01MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONELETTRA BEAMLINE 5.2R0.9801ELETTRA5.2R

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
12.5470.710.1429.112.31770917709

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB ENTRY 1LVO2.5470.71177091770996598.220.200680.196390.27887RANDOM28.781
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]
0.180.55-0.910.98
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg7.547
r_mcangle_it2.295
r_scangle_it2.214
r_angle_refined_deg1.836
r_scbond_it1.399
r_mcbond_it1.343
r_angle_other_deg1.104
r_symmetry_vdw_other0.367
r_symmetry_hbond_refined0.361
r_nbd_other0.27
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg7.547
r_mcangle_it2.295
r_scangle_it2.214
r_angle_refined_deg1.836
r_scbond_it1.399
r_mcbond_it1.343
r_angle_other_deg1.104
r_symmetry_vdw_other0.367
r_symmetry_hbond_refined0.361
r_nbd_other0.27
r_nbd_refined0.252
r_xyhbond_nbd_refined0.211
r_symmetry_vdw_refined0.163
r_chiral_restr0.103
r_nbtor_other0.102
r_bond_refined_d0.02
r_gen_planes_refined0.007
r_gen_planes_other0.006
r_bond_other_d0.003
r_xyhbond_nbd_other
r_symmetry_hbond_other
r_dihedral_angle_2_deg
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms4589
Nucleic Acid Atoms
Solvent Atoms32
Heterogen Atoms12

Software

Software
Software NamePurpose
REFMACrefinement
MAR345data collection
SCALEPACKdata scaling
AMoREphasing