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 = 92.41 α = 90
b = 92.41 β = 90
c = 57.51 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 -- 2015-11-08
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 23-ID-B 1.033760 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
2.4 46.7 94.1 0.071 -- -- 8.3 -- 10448 -- -- 60.44
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)
2.4 2.49 95.2 1.313 -- -- 8.1 --

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 2.4 46.7 -- 1.35 -- 10446 500 94.15 -- 0.2247 0.2237 0.2433 --
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 2.4003 2.6419 -- 131 2505 0.3011 0.3296 0.0 96.0
X Ray Diffraction 2.6419 3.0241 -- 104 2519 0.2911 0.3136 0.0 95.0
X Ray Diffraction 3.0241 3.8098 -- 124 2465 0.2433 0.2508 0.0 94.0
X Ray Diffraction 3.8098 46.7099 -- 141 2457 0.1898 0.2194 0.0 92.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 79.5318
RMS Deviations
Key Refinement Restraint Deviation
f_bond_d 0.002
f_angle_d 0.474
f_chiral_restr 0.038
f_plane_restr 0.004
f_dihedral_angle_d 9.193
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1690
Nucleic Acid Atoms 0
Heterogen Atoms 15
Solvent Atoms 41

Software

Software
Software Name Purpose
Aimless data scaling version: 0.5.17
Blu-Ice data collection
PHENIX refinement version: 1.11.1-2575_1692
PDB_EXTRACT data extraction version: 3.22
Aimless data reduction version: 0.5.17
PHASER phasing version: 2.5.7