6B2J

E45A mutant of HIV-1 capsid protein (other crystal form)


X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

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

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 92.49 α = 90
b = 92.49 β = 90
c = 57.75 γ = 120
Symmetry
Space Group P 6

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 300 mm CCD -- 2016-04-10
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 23-ID-B 1.033200 APS 23-ID-B

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
2.21 47 99.9 0.084 -- -- 11.3 -- 14252 -- -- --
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)
2.21 2.28 99.2 1.32 -- -- 10.7 --

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
SAD 2.21 47.0 -- 0.0 -- 13556 693 99.95 -- 0.2033 0.2023 0.2233 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 2.21 2.267 -- 54 987 0.278 0.299 0.0 99.52
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 63.319
Anisotropic B[1][1] -0.58
Anisotropic B[1][2] -0.29
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.58
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.88
RMS Deviations
Key Refinement Restraint Deviation
r_angle_other_deg 0.851
r_chiral_restr 0.054
r_sphericity_bonded 53.232
r_dihedral_angle_1_deg 5.282
r_gen_planes_refined 0.004
r_sphericity_free 51.767
r_dihedral_angle_2_deg 32.923
r_dihedral_angle_4_deg 18.231
r_bond_other_d 0.001
r_gen_planes_other 0.001
r_angle_refined_deg 1.062
r_dihedral_angle_3_deg 11.687
r_bond_refined_d 0.007
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1721
Nucleic Acid Atoms 0
Heterogen Atoms 14
Solvent Atoms 98

Software

Software
Software Name Purpose
Aimless data scaling version: 0.5.24
REFMAC refinement version: 5.8.0155
PDB_EXTRACT data extraction version: 3.22
Aimless data reduction version: 0.5.24
CRANK2 phasing