4DJO

Crystal Structure of wild-type HIV-1 Protease in Complex with MKP56


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
2.0941.17

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 50.732α = 90
b = 57.763β = 90
c = 61.736γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATERIGAKU RAXIS IV2011-05-01SINGLE 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
11.785098.70.04316.66.817839
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)
11.781.8497.70.2276.61721

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (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 REPLACEMENTTHROUGHOUT1.7839.21774790498.350.16260.15970.2166RANDOM28.6079
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]
-0.480.080.4
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg40.679
r_dihedral_angle_4_deg22.13
r_dihedral_angle_3_deg13.287
r_dihedral_angle_1_deg5.838
r_scangle_it2.559
r_scbond_it1.617
r_angle_refined_deg1.31
r_mcangle_it0.941
r_angle_other_deg0.792
r_mcbond_it0.541
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg40.679
r_dihedral_angle_4_deg22.13
r_dihedral_angle_3_deg13.287
r_dihedral_angle_1_deg5.838
r_scangle_it2.559
r_scbond_it1.617
r_angle_refined_deg1.31
r_mcangle_it0.941
r_angle_other_deg0.792
r_mcbond_it0.541
r_mcbond_other0.175
r_chiral_restr0.078
r_bond_refined_d0.009
r_gen_planes_refined0.005
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1514
Nucleic Acid Atoms
Solvent Atoms162
Heterogen Atoms60

Software

Software
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
REFMACrefinement
PDB_EXTRACTdata extraction
AMoREphasing