6B2I

E45A mutant of the HIV-1 capsid protein


X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
Temperature 291.0
Details PEG3350, NaI, Sodium cacodylate, Glycerol

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 87.61 α = 90
b = 87.61 β = 90
c = 56.47 γ = 120
Symmetry
Space Group P 6

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M -- 2015-03-27
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 23-ID-D 1.033200 APS 23-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
2.5 37.94 99.3 0.144 -- -- 4.8 -- 8647 -- -- 49.61
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)
2.5 2.6 95.9 0.807 -- -- 4.4 --

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 2.499 34.612 -- 1.35 -- 8631 422 99.21 -- 0.2056 0.2033 0.2464 --
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 2.499 2.8604 -- 142 2690 0.3033 0.4222 0.0 99.0
X Ray Diffraction 2.8604 3.6032 -- 147 2723 0.234 0.3018 0.0 100.0
X Ray Diffraction 3.6032 34.6158 -- 133 2796 0.1687 0.1869 0.0 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 69.5736
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.004
f_angle_d 0.456
f_dihedral_angle_d 15.716
f_chiral_restr 0.039
f_bond_d 0.002
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1721
Nucleic Acid Atoms 0
Heterogen Atoms 15
Solvent Atoms 60

Software

Software
Software Name Purpose
Aimless data scaling version: 0.5.27
Blu-Ice data collection
PHENIX refinement version: 1.10.1-2155_1692
PDB_EXTRACT data extraction version: 3.22
Aimless data reduction version: 0.5.27
PHASER phasing version: 2.6.1