3SAA

Crystal structure of Wild-type HIV-1 protease in complex With AF77


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1F7APDB ENTRY 1F7A

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1HANGING DROP, VAPOR DIFFUSION6.229524-29% ammonium sulfate, 63 mM sodium citrate, 126 mM phosphate buffer, pH 6.2, HANGING DROP, VAPOR DIFFUSION, temperature 295K
Crystal Properties
Matthews coefficientSolvent content
2.1242.06

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 51.007α = 90
b = 58.114β = 90
c = 61.971γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATERIGAKU RAXIS IV2009-12-14SINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU

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
11.955092.10.04818.86.912874
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)
11.952.0262.30.1876.2854

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (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 REPLACEMENTTHROUGHOUTPDB ENTRY 1F7A1.9542.391279863891.840.17580.17320.2281RANDOM28.9368
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]
-0.80.110.69
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg43.734
r_dihedral_angle_3_deg14.878
r_dihedral_angle_4_deg12.121
r_dihedral_angle_1_deg6.132
r_scangle_it2.471
r_scbond_it1.648
r_angle_refined_deg1.474
r_mcangle_it0.934
r_angle_other_deg0.864
r_mcbond_it0.577
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg43.734
r_dihedral_angle_3_deg14.878
r_dihedral_angle_4_deg12.121
r_dihedral_angle_1_deg6.132
r_scangle_it2.471
r_scbond_it1.648
r_angle_refined_deg1.474
r_mcangle_it0.934
r_angle_other_deg0.864
r_mcbond_it0.577
r_mcbond_other0.173
r_chiral_restr0.087
r_bond_refined_d0.009
r_gen_planes_refined0.006
r_bond_other_d0.002
r_gen_planes_other0.002
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1498
Nucleic Acid Atoms
Solvent Atoms101
Heterogen Atoms50

Software

Software
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
REFMACrefinement
PDB_EXTRACTdata extraction
HKL-2000data reduction
AMoREphasing