4Q1X

Mutations Outside the Active Site of HIV-1 Protease Alter Enzyme Structure and Dynamic Ensemble of the Active Site to Confer Drug Resistance


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP6.2295126mM Phosphate buffer, 63mM Sodium Citrate, 24-29% Ammonium Sulfate, pH 6.2, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties
Matthews coefficientSolvent content
2.1241.85

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 50.906α = 90
b = 58.277β = 90
c = 61.775γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATERIGAKU RAXIS IVOSMIC Mirrors2008-09-22MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU1.5418

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
11.942.4193.860.06315.27.1141681416833
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.91.9791.47.11346

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (High)Resolution (Low)Cut-off Sigma (I)Cut-off Sigma (F)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 REPLACEMENTTHROUGHOUT1.942.4133150631341671993.860.182890.18020.2341RANDOM27.975
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]
-0.670.340.33
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg42.57
r_dihedral_angle_4_deg21.123
r_dihedral_angle_3_deg11.073
r_dihedral_angle_1_deg6.092
r_scangle_it2.133
r_scbond_it1.475
r_angle_refined_deg1.474
r_mcangle_it0.96
r_angle_other_deg0.856
r_mcbond_it0.707
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg42.57
r_dihedral_angle_4_deg21.123
r_dihedral_angle_3_deg11.073
r_dihedral_angle_1_deg6.092
r_scangle_it2.133
r_scbond_it1.475
r_angle_refined_deg1.474
r_mcangle_it0.96
r_angle_other_deg0.856
r_mcbond_it0.707
r_symmetry_vdw_other0.199
r_nbd_other0.197
r_symmetry_hbond_refined0.189
r_nbd_refined0.186
r_symmetry_vdw_refined0.186
r_mcbond_other0.176
r_nbtor_refined0.17
r_xyhbond_nbd_refined0.13
r_chiral_restr0.088
r_nbtor_other0.084
r_bond_refined_d0.008
r_gen_planes_refined0.004
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1488
Nucleic Acid Atoms
Solvent Atoms93
Heterogen Atoms49

Software

Software
Software NamePurpose
REFMACrefinement
StructureStudiodata collection
HKL-2000data reduction
HKL-2000data scaling
AMoREphasing