X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.5
Temperature 289.0
Details 0.1 M sodium acetate, 0.1 M HEPES pH 7.5, 22%(w/v) PEG4000, VAPOR DIFFUSION, SITTING DROP, temperature 289K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 145.42 α = 90
b = 145.42 β = 90
c = 67.72 γ = 120
Symmetry
Space Group P 31 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r mirrors 2014-03-17
Diffraction Radiation
Monochromator Protocol
double crystal monochromator SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-ID 0.97924 APS 19-ID

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
2.9 50 98.2 -- 0.103 -- 4.1 18196 18196 0.0 0.0 53.25
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)
2.9 2.95 96.9 -- 0.754 2.3 4.0 888

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 2.902 36.354 -- 0.0 17893 17893 908 96.62 0.153 0.153 0.151 0.207 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 2.9017 3.0835 2761 146 2615 0.2223 0.2887 -- 90.0
X Ray Diffraction 3.0835 3.3214 2942 162 2780 0.1829 0.2521 -- 97.0
X Ray Diffraction 3.3214 3.6553 2999 130 2869 0.1581 0.2454 -- 98.0
X Ray Diffraction 3.6553 4.1836 3020 165 2855 0.1303 0.1928 -- 99.0
X Ray Diffraction 4.1836 5.2684 3058 149 2909 0.1274 0.161 -- 99.0
X Ray Diffraction 5.2684 36.3573 3113 156 2957 0.1484 0.1949 -- 97.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model mixed
Mean Isotropic B 59.4
RMS Deviations
Key Refinement Restraint Deviation
f_angle_d 1.156
f_plane_restr 0.005
f_bond_d 0.009
f_dihedral_angle_d 14.779
f_chiral_restr 0.045
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4433
Nucleic Acid Atoms 0
Heterogen Atoms 11
Solvent Atoms 45

Software

Software
Software Name Purpose
SBC-Collect data collection
HKL-3000 data collection
HKL-3000 phasing
MOLREP phasing
PHENIX model building version: (AutoBuild)
PHENIX refinement version: (phenix.refine: dev_1745)
HKL-3000 data reduction
HKL-3000 data scaling
PHENIX phasing version: (AutoBuild)