1IZH

Inhibitor of HIV protease with unusual binding mode potently inhibiting multi-resistant protease mutants


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 5HVPPDB ENTRY 5HVP

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP6278MES, DTT, EDTA, NaN3, KCl, pH 6, VAPOR DIFFUSION, HANGING DROP, temperature 278K
Crystal Properties
Matthews coefficientSolvent content
2.754.49

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 58.452α = 90
b = 85.756β = 90
c = 46.746γ = 90
Symmetry
Space GroupP 21 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATEMARRESEARCH1997-07-01MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODEENRAF-NONIUS FR5911.54178

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
11.95095.90.06512.34.74183881838822.772
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)
1.91.9791.30.37631715

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 DIFFRACTIONFOURIER SYNTHESISTHROUGHOUTPDB ENTRY 5HVP1.943.03183881742194895.890.181160.181160.178080.2408RANDOM23.734
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]
0.7-0.66-0.04
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg5.644
r_scangle_it3.048
r_mcangle_it2.489
r_scbond_it1.938
r_angle_refined_deg1.727
r_mcbond_it1.613
r_angle_other_deg0.736
r_nbd_other0.275
r_symmetry_vdw_other0.26
r_xyhbond_nbd_refined0.199
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg5.644
r_scangle_it3.048
r_mcangle_it2.489
r_scbond_it1.938
r_angle_refined_deg1.727
r_mcbond_it1.613
r_angle_other_deg0.736
r_nbd_other0.275
r_symmetry_vdw_other0.26
r_xyhbond_nbd_refined0.199
r_nbd_refined0.189
r_symmetry_hbond_refined0.16
r_chiral_restr0.111
r_symmetry_vdw_refined0.096
r_nbtor_other0.09
r_bond_refined_d0.022
r_gen_planes_refined0.008
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1520
Nucleic Acid Atoms
Solvent Atoms221
Heterogen Atoms100

Software

Software
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
REFMACrefinement