8T8N

Venezuelan Equine Encephalitis Virus (VEEV) Nonstructural Protein 2 (nsP2) Cysteine Protease Inhibited with CA074


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2HWK 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP7290Modified JCSG+ Condition 8 (0.2 M Ammonium formate, 20% w/v PEG3350, 20% glycerol). Protein buffer contained 50 mM HEPES pH 7.0, 0.5 mM CA074, and 30 mM CaCl2
Crystal Properties
Matthews coefficientSolvent content
2.1843.53

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 60.762α = 90
b = 63.582β = 90
c = 86.283γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray150CCDBruker Platinum 1352015-12-15MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODEBRUKER AXS MICROSTAR-H1.54

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)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
12.3263.5894.60.13110.050818.0313.3514251
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)RedundancyNumber Unique Reflections (All)
12.322.4292.80.43570.17176.0812.79

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-WorkR-FreeMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT2.3251.1861418467894.4780.1910.19030.200319.752
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]
-1.6020.720.882
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.257
r_dihedral_angle_4_deg19.898
r_dihedral_angle_3_deg16.127
r_dihedral_angle_1_deg6.564
r_dihedral_angle_other_3_deg4.958
r_lrange_it4.284
r_lrange_other4.257
r_mcangle_it2.245
r_mcangle_other2.245
r_scangle_it2.13
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.257
r_dihedral_angle_4_deg19.898
r_dihedral_angle_3_deg16.127
r_dihedral_angle_1_deg6.564
r_dihedral_angle_other_3_deg4.958
r_lrange_it4.284
r_lrange_other4.257
r_mcangle_it2.245
r_mcangle_other2.245
r_scangle_it2.13
r_scangle_other2.129
r_angle_other_deg1.358
r_mcbond_it1.273
r_mcbond_other1.272
r_scbond_it1.255
r_scbond_other1.255
r_angle_refined_deg1.229
r_nbd_refined0.193
r_symmetry_nbd_other0.193
r_xyhbond_nbd_refined0.171
r_nbd_other0.17
r_nbtor_refined0.164
r_symmetry_xyhbond_nbd_refined0.142
r_symmetry_nbd_refined0.133
r_symmetry_nbtor_other0.081
r_chiral_restr0.06
r_symmetry_xyhbond_nbd_other0.057
r_bond_refined_d0.006
r_gen_planes_refined0.005
r_bond_other_d0.003
r_gen_planes_other0.002
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2552
Nucleic Acid Atoms
Solvent Atoms135
Heterogen Atoms27

Software

Software
Software NamePurpose
REFMACrefinement
SAINTdata reduction
SADABSdata scaling
PHASERphasing