1ZBG

Crystal structure of a complex of mutant hiv-1 protease (A71V, V82T, I84V) with a hydroxyethylamine peptidomimetic inhibitor BOC-PHE-PSI[R-CH(OH)CH2NH]-PHE-GLU-PHE-NH2


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1A9MPDB ENTRY 1A9M

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP4.42980.1 M Na Citrate, 1M NaCl, pH 4.4, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties
Matthews coefficientSolvent content
2.3547.2

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 56.409α = 90
b = 87.419β = 90
c = 94.9γ = 90
Symmetry
Space GroupI 2 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARRESEARCHmicrofocussing mirrors - testing2000-04-12MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID14-10.934ESRFID14-1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)R Sym 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
11.9952587.60.0610.06119.43.21634214316-99934
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.9952.04786.40.3250.3253.93997

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB ENTRY 1A9M1.99525143161431673987.60.184980.184980.186650.23732RANDOM31.629
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]
-1.43-2.974.39
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.74
r_dihedral_angle_3_deg16.185
r_dihedral_angle_4_deg15.259
r_dihedral_angle_1_deg6.78
r_scangle_it4.224
r_scbond_it2.627
r_mcangle_it1.822
r_angle_refined_deg1.697
r_mcbond_it1.035
r_nbtor_refined0.315
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.74
r_dihedral_angle_3_deg16.185
r_dihedral_angle_4_deg15.259
r_dihedral_angle_1_deg6.78
r_scangle_it4.224
r_scbond_it2.627
r_mcangle_it1.822
r_angle_refined_deg1.697
r_mcbond_it1.035
r_nbtor_refined0.315
r_symmetry_hbond_refined0.249
r_nbd_refined0.213
r_symmetry_vdw_refined0.197
r_xyhbond_nbd_refined0.157
r_chiral_restr0.133
r_bond_refined_d0.016
r_gen_planes_refined0.007
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1526
Nucleic Acid Atoms
Solvent Atoms159
Heterogen Atoms55

Software

Software
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
MOLREPphasing
REFMACrefinement