2O4P

Crystal Structure of HIV-1 Protease (Q7K) in Complex with Tipranavir


X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
Temperature 298.0
Details VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 58.61 α = 90
b = 86.26 β = 90
c = 45.89 γ = 90
Symmetry
Space Group P 21 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS IV Osmic Mirrors 2004-02-27
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RU200 1.54 -- --

Data Collection

Overall
Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot
1.8 48.51 95.6 0.09 0.09 -- 4.2 -- 21285 -- -- --
High Resolution Shell
Resolution (High) Resolution (Low) Percent Possible (All) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All)
1.8 1.86 90.2 0.55 0.55 1.42 3.0 --

Refinement

Statistics
Structure Solution Method Refinement High Resolution Refinement Low Resolution Cut-off Sigma (I) Cut-off Sigma (F) Number of Reflections (All) Number of Reflections (Observed) Number of Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work R-Free R-Free Selection Details
MOLECULAR REPLACEMENT 1.8 48.51 -- -- -- 21269 2118 100.0 -- 0.20303 0.19955 0.23306 RANDOM
High Resolution Shell
Refinement method Shell Resolution (High) Shell Resolution (Low) # of Reflections (Observed) # of Reflections (R-Free) # of Reflections (R-Work) R-Factor (R-Work) R-Factor (R-Free) R-Factor (R-Free Error) Percent Reflections (Observed)
X Ray Diffraction 1.799 1.846 -- 127 1289 0.288 0.394 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 27.071
Anisotropic B[1][1] 0.53
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.06
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.59
RMS Deviations
Key Refinement Restraint Deviation
r_chiral_restr 0.097
r_symmetry_vdw_refined 0.16
r_xyhbond_nbd_refined 0.165
r_mcbond_it 0.959
r_angle_refined_deg 1.532
r_dihedral_angle_2_deg 39.493
r_dihedral_angle_3_deg 12.764
r_dihedral_angle_4_deg 13.642
r_bond_refined_d 0.014
r_symmetry_hbond_refined 0.126
r_dihedral_angle_1_deg 5.857
r_scbond_it 2.282
r_mcangle_it 1.392
r_nbtor_refined 0.304
r_gen_planes_refined 0.006
r_nbd_refined 0.188
r_scangle_it 3.417
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1516
Nucleic Acid Atoms 0
Heterogen Atoms 48
Solvent Atoms 124

Software

Software
Software Name Purpose
REFMAC refinement
PDB_EXTRACT data extraction version: 2.000
DENZO data reduction
SCALEPACK data scaling
CNS phasing