3OUB

MDR769 HIV-1 protease complexed with NC/p1 hepta-peptide


X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5.8
Temperature 298.0
Details 0.8M NaCl 0.1 M MES , pH 5.8, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 45.61 α = 90
b = 45.61 β = 90
c = 102 γ = 90
Symmetry
Space Group P 41

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 173
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 300 mm CCD -- 2008-08-09
Diffraction Radiation
Monochromator Protocol
Kohzu SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 21-ID-D 1.0332 APS 21-ID-D

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
1.4 27.26 100.0 -- -- -- -- 40904 40904 1.0 1.0 --
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)
1.4 1.45 100.0 -- -- -- -- --

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 1.6 34.0 -- 0.0 26024 26011 1371 99.95 0.19168 0.19396 0.19168 0.23618 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 1.602 1.643 -- 117 1925 0.226 0.255 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 20.419
Anisotropic B[1][1] 0.01
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.01
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.01
RMS Deviations
Key Refinement Restraint Deviation
r_scbond_it 2.404
r_dihedral_angle_1_deg 5.935
r_bond_refined_d 0.01
r_dihedral_angle_3_deg 11.835
r_nbtor_refined 0.312
r_gen_planes_refined 0.005
r_mcbond_it 0.978
r_angle_refined_deg 1.319
r_dihedral_angle_4_deg 9.506
r_mcangle_it 1.477
r_dihedral_angle_2_deg 37.923
r_chiral_restr 0.083
r_symmetry_hbond_refined 0.23
r_nbd_refined 0.211
r_symmetry_vdw_refined 0.238
r_xyhbond_nbd_refined 0.159
r_scangle_it 3.842
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1569
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 298

Software

Software
Software Name Purpose
HKL-2000 data collection
AMoRE phasing
REFMAC refinement version: 5.2.0019
CrystalClear data reduction
CrystalClear data scaling