5HGN

Hexameric HIV-1 CA, apo form


X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 8.5
Temperature 290.0
Details PEG550MME (13-14%), KSCN (0.15M), TRIS (0.1M, pH 8.5)

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 90.73 α = 90
b = 90.73 β = 90
c = 56.75 γ = 120
Symmetry
Space Group P 6

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M -- 2014-10-15
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON DIAMOND BEAMLINE I02 0.9794 Diamond I02

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
1.9 26.69 99.8 0.121 -- -- 5.1 -- 21070 -- -- --
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)
1.9 1.94 100.0 0.748 -- 2.1 4.8 1409

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 1.9 26.69 -- 0.0 -- 19999 1069 99.73 -- 0.2013 0.2002 0.223 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 1.9 1.949 -- 79 1468 0.266 0.342 -- 99.94
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 30.171
Anisotropic B[1][1] 0.53
Anisotropic B[1][2] 0.26
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.53
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.71
RMS Deviations
Key Refinement Restraint Deviation
r_bond_refined_d 0.007
r_dihedral_angle_1_deg 4.886
r_dihedral_angle_4_deg 15.762
r_gen_planes_other 0.001
r_bond_other_d 0.001
r_angle_refined_deg 0.998
r_mcbond_other 2.311
r_angle_other_deg 0.856
r_dihedral_angle_3_deg 11.897
r_gen_planes_refined 0.004
r_mcbond_it 2.315
r_chiral_restr 0.056
r_mcangle_it 3.447
r_dihedral_angle_2_deg 33.659
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1580
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 124

Software

Software
Software Name Purpose
Aimless data scaling version: 0.4.2
PHASER phasing version: 2.5.7
REFMAC refinement version: 5.8.0131
PDB_EXTRACT data extraction version: 3.15
iMOSFLM data reduction