3ZVE

3C protease of Enterovirus 68 complexed with Michael receptor inhibitor 84


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3ZV8PDB ENTRY 3ZV8

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP4.60.07 M SODIUM ACETATE (PH 4.6), 15% PEG 4000, AND 30% GLYCEROL; SITTING DROP
Crystal Properties
Matthews coefficientSolvent content
3.7166.88

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 56.3α = 90
b = 56.3β = 90
c = 170.351γ = 120
Symmetry
Space GroupP 31 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARRESEARCHMIRRORSMSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONBESSY BEAMLINE 14.1BESSY14.1

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
11.834.071000.0617.38.5299272
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.81.91000.444.28.6

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)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 3ZV81.856.7828352151499.960.204040.202720.22963RANDOM28.231
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]
1.540.771.54-2.31
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.215
r_dihedral_angle_4_deg25.424
r_dihedral_angle_3_deg14.007
r_dihedral_angle_1_deg6.888
r_scangle_it4.769
r_scbond_it2.913
r_mcangle_it1.951
r_angle_refined_deg1.686
r_mcbond_it1.068
r_chiral_restr0.12
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.215
r_dihedral_angle_4_deg25.424
r_dihedral_angle_3_deg14.007
r_dihedral_angle_1_deg6.888
r_scangle_it4.769
r_scbond_it2.913
r_mcangle_it1.951
r_angle_refined_deg1.686
r_mcbond_it1.068
r_chiral_restr0.12
r_bond_refined_d0.017
r_gen_planes_refined0.008
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_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 AtomsNumber
Protein Atoms1470
Nucleic Acid Atoms
Solvent Atoms109
Heterogen Atoms55

Software

Software
Software NamePurpose
REFMACrefinement
iMOSFLMdata reduction
SCALAdata scaling
MOLREPphasing