X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 8
Temperature 294.0
Details 0.1 M tris(hydroxymethyl)aminomethane) (TRIS, pH = 8.0), 4 mM tris(2-carboxyethyl)phosphine (TCEP), 17.5% PEG 400, VAPOR DIFFUSION, SITTING DROP, temperature 294K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 80.41 α = 90
b = 80.41 β = 90
c = 106.06 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 2013-08-13
Diffraction Radiation
Monochromator Protocol
Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X29A 1.075 NSLS X29A

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
2.31 50 100.0 0.082 -- -- 12.0 17924 17922 0.0 -3.0 51.85
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)
2.31 2.39 100.0 1.597 -- 2.0 11.5 1740

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 2.31 42.19 -- 1.34 17899 17891 1814 99.94 -- 0.2083 0.2044 0.2415 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 2.3095 2.372 -- 142 1201 0.286 0.3262 -- 100.0
X Ray Diffraction 2.372 2.4417 -- 138 1219 0.2788 0.3517 -- 100.0
X Ray Diffraction 2.4417 2.5205 -- 143 1203 0.2596 0.2876 -- 100.0
X Ray Diffraction 2.5205 2.6106 -- 142 1225 0.2575 0.3073 -- 100.0
X Ray Diffraction 2.6106 2.7151 -- 156 1194 0.2366 0.3102 -- 100.0
X Ray Diffraction 2.7151 2.8387 -- 116 1249 0.255 0.3453 -- 100.0
X Ray Diffraction 2.8387 2.9883 -- 134 1217 0.2366 0.3072 -- 100.0
X Ray Diffraction 2.9883 3.1755 -- 141 1243 0.2359 0.2922 -- 100.0
X Ray Diffraction 3.1755 3.4205 -- 148 1220 0.2213 0.2891 -- 100.0
X Ray Diffraction 3.4205 3.7646 -- 129 1241 0.2032 0.2215 -- 100.0
X Ray Diffraction 3.7646 4.3088 -- 133 1258 0.1851 0.1887 -- 100.0
X Ray Diffraction 4.3088 5.4269 -- 145 1264 0.18 0.2067 -- 100.0
X Ray Diffraction 5.4269 42.1966 -- 147 1343 0.175 0.2085 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model isotropic
Mean Isotropic B 57.99
RMS Deviations
Key Refinement Restraint Deviation
f_chiral_restr 0.042
f_plane_restr 0.003
f_dihedral_angle_d 11.418
f_bond_d 0.002
f_angle_d 0.63
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2862
Nucleic Acid Atoms 0
Heterogen Atoms 22
Solvent Atoms 49

Software

Software
Software Name Purpose
CBASS data collection
PHASER phasing
PHENIX refinement version: (phenix.refine: dev_1370)
HKL-2000 data reduction
HKL-2000 data scaling