2FP7

West Nile Virus NS2B/NS3protease in complex with Bz-Nle-Lys-Arg-Arg-H


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelOtherinhouse - obtained by SAD phasing

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION8.52982 M ammonioum sulfate, 100mM HEPES., pH 8.5, VAPOR DIFFUSION, temperature 321K
Crystal Properties
Matthews coefficientSolvent content
2.4249.15

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 93.425α = 90
b = 93.425β = 90
c = 47.435γ = 120
Symmetry
Space GroupP 65

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARRESEARCH2005-11-25MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSLS BEAMLINE X10SA1.00005SLSX10SA

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (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
11.688197.90.04721.55.62654726547-330.5
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.681.7392.40.3133.83.1

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 REPLACEMENTTHROUGHOUTinhouse - obtained by SAD phasing1.6846.732521625216132897.870.182470.180540.2188RANDOM30.78
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]
-1.32-0.66-1.321.98
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg28.996
r_dihedral_angle_4_deg15.465
r_dihedral_angle_3_deg13.167
r_dihedral_angle_1_deg6.491
r_scangle_it3.138
r_scbond_it2.034
r_mcangle_it1.485
r_angle_refined_deg1.388
r_mcbond_it0.913
r_nbtor_refined0.306
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg28.996
r_dihedral_angle_4_deg15.465
r_dihedral_angle_3_deg13.167
r_dihedral_angle_1_deg6.491
r_scangle_it3.138
r_scbond_it2.034
r_mcangle_it1.485
r_angle_refined_deg1.388
r_mcbond_it0.913
r_nbtor_refined0.306
r_nbd_refined0.195
r_symmetry_hbond_refined0.154
r_symmetry_vdw_refined0.14
r_xyhbond_nbd_refined0.117
r_chiral_restr0.105
r_bond_refined_d0.012
r_gen_planes_refined0.005
r_bond_other_d
r_angle_other_deg
r_gen_planes_other
r_nbd_other
r_nbtor_other
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_other
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 AtomsNumber
Protein Atoms1486
Nucleic Acid Atoms
Solvent Atoms133
Heterogen Atoms

Software

Software
Software NamePurpose
REFMACrefinement
MAR345data collection
XDSdata scaling
CNXphasing