4F75

Crystal Structure of active HIV-1 Protease in Complex with the N terminal product of the substrate RH-IN


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP6.2295126mM Phosphate buffer pH 6.2, 63mM Sodium Citrate, 24-31% Ammonium Sulfate, hanging drop, vapor diffusion, temperature 295K, VAPOR DIFFUSION, HANGING DROP
Crystal Properties
Matthew coefficientSolvent content
238.46

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 50.783α = 90
b = 58.108β = 90
c = 61.797γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 3152010-07-15SINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 14-BM-C0.9APS14-BM-C

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
11.655099.70.05811.87.822603
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)
11.651.7199.70.5257.92219

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 REPLACEMENTTHROUGHOUT1.742.3320581105399.350.17110.16990.1934RANDOM23.0717
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]
-1-0.111.11
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.606
r_dihedral_angle_4_deg16.06
r_dihedral_angle_3_deg12.19
r_dihedral_angle_1_deg6.434
r_scangle_it2.651
r_scbond_it1.676
r_angle_refined_deg1.344
r_mcangle_it0.973
r_angle_other_deg0.835
r_mcbond_it0.581
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.606
r_dihedral_angle_4_deg16.06
r_dihedral_angle_3_deg12.19
r_dihedral_angle_1_deg6.434
r_scangle_it2.651
r_scbond_it1.676
r_angle_refined_deg1.344
r_mcangle_it0.973
r_angle_other_deg0.835
r_mcbond_it0.581
r_mcbond_other0.177
r_chiral_restr0.086
r_bond_refined_d0.009
r_gen_planes_refined0.006
r_gen_planes_other0.002
r_bond_other_d0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1540
Nucleic Acid Atoms
Solvent Atoms120
Heterogen Atoms10

Software

Software
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
REFMACrefinement
PDB_EXTRACTdata extraction