X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 4.2
Temperature 298.0
Details 0.2 M Li2SO4, 0.1 M phosphate-citrate, pH 4.2 and 20% (w/v) PEG 1000, VAPOR DIFFUSION, SITTING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 55.09 α = 90
b = 72.87 β = 90
c = 175.55 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 80
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2012-08-01
Diffraction Radiation
Monochromator Protocol
Asymmetric cut single crystal Si(220) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 5.0.3 0.9765 ALS 5.0.3

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
2.7 39.3 100.0 0.079 0.09 -- 4.36 20077 20077 1.0 1.0 71.0
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)
2.7 2.8 100.0 0.506 0.574 1.9 4.49 1968

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 2.7 39.296 -- 1.34 20077 20027 1016 99.46 -- 0.2112 0.2086 0.262 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 2.7002 2.8425 -- 141 2665 0.2739 0.354 -- 100.0
X Ray Diffraction 2.8425 3.0205 -- 152 2670 0.2665 0.3651 -- 100.0
X Ray Diffraction 3.0205 3.2536 -- 144 2691 0.2462 0.3286 -- 100.0
X Ray Diffraction 3.2536 3.5809 -- 151 2658 0.2363 0.3017 -- 100.0
X Ray Diffraction 3.5809 4.0985 -- 141 2720 0.1927 0.2834 -- 100.0
X Ray Diffraction 4.0985 5.1619 -- 158 2727 0.1861 0.1884 -- 99.0
X Ray Diffraction 5.1619 39.2997 -- 129 2880 0.198 0.2585 -- 99.0
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.006
f_chiral_restr 0.057
f_dihedral_angle_d 15.093
f_angle_d 1.061
f_bond_d 0.007
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3808
Nucleic Acid Atoms 887
Heterogen Atoms 0
Solvent Atoms 8

Software

Computing
Computing Package Purpose
ADSC Quantum Data Collection
d*TREK Data Reduction (intensity integration)
d*TREK Data Reduction (data scaling)
PHENIX Structure Solution
PHENIX (phenix.refine: 1.8_1069) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.8_1069) refinement
PHENIX model building
ADSC version: Quantum data collection