4Z0X

Structure of Hepatitis C Virus Envelope glycoprotein E2 antigenic region 434-446 bound to the broadly neutralizing antibody HC26AM


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 4JZOPDB entries 4JZO, 4HJO, 3QOT, 4DN3 (VH) & 4AIX, 4AJO, 4QHK, 4DAG (VL)
experimental modelPDB 4HJOPDB entries 4JZO, 4HJO, 3QOT, 4DN3 (VH) & 4AIX, 4AJO, 4QHK, 4DAG (VL)
experimental modelPDB 3QOTPDB entries 4JZO, 4HJO, 3QOT, 4DN3 (VH) & 4AIX, 4AJO, 4QHK, 4DAG (VL)
experimental modelPDB 4DN3PDB entries 4JZO, 4HJO, 3QOT, 4DN3 (VH) & 4AIX, 4AJO, 4QHK, 4DAG (VL)
experimental modelPDB 4AIXPDB entries 4JZO, 4HJO, 3QOT, 4DN3 (VH) & 4AIX, 4AJO, 4QHK, 4DAG (VL)
experimental modelPDB 4AJOPDB entries 4JZO, 4HJO, 3QOT, 4DN3 (VH) & 4AIX, 4AJO, 4QHK, 4DAG (VL)
experimental modelPDB 4QHKPDB entries 4JZO, 4HJO, 3QOT, 4DN3 (VH) & 4AIX, 4AJO, 4QHK, 4DAG (VL)
experimental modelPDB 4DAGPDB entries 4JZO, 4HJO, 3QOT, 4DN3 (VH) & 4AIX, 4AJO, 4QHK, 4DAG (VL)

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP4.2298Sodium Phosphat monobasic, potassium phosphate dibasic, sodium phosphate dibasic/citric acid
Crystal Properties
Matthews coefficientSolvent content
1.7330

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 50.72α = 90
b = 51.07β = 90
c = 69.66γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray298CCDADSC QUANTUM 315r2014-09-10MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONNSLS BEAMLINE X29A1.075NSLSX29A

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
1241.19960.14514.812.71561218.39

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Cut-off Sigma (F)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTFREE R-VALUEPDB entries 4JZO, 4HJO, 3QOT, 4DN3 (VH) & 4AIX, 4AJO, 4QHK, 4DAG (VL)241.190.0312221121395.950.19620.19030.249721.29
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]
RMS Deviations
KeyRefinement Restraint Deviation
f_dihedral_angle_d13.2504
f_angle_d1.0043
f_chiral_restr0.0639
f_plane_restr0.0079
f_bond_d0.0076
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1642
Nucleic Acid Atoms
Solvent Atoms122
Heterogen Atoms

Software

Software
Software NamePurpose
PHENIXrefinement
PHENIXrefinement
HKL-2000data reduction
SCALAdata scaling
PHASERphasing