X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
Temperature 295.0
Details 0.2 M Sodium thiocyanate and 20% PEG 3350 with the protein at a final concentration of 5 mg/ml in a 1.6 ul drop

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 60.15 α = 101.76
b = 66.79 β = 89.37
c = 87.93 γ = 105.27
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 200
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2014-05-12
Diffraction Radiation
Monochromator Protocol
Double-crystal Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 8.2.2 1.0 ALS 8.2.2

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
3.56 50 98.6 0.155 0.107 -- 3.6 -- 15767 -- 2.0 --
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)
3.56 3.63 98.2 0.49 -- 4.1 3.5 --

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 3.56 49.11 -- 1.96 -- 15043 765 97.4 -- 0.269 0.266 0.322 Random selection
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 3.5601 3.8349 -- 145 2831 0.3668 0.4017 -- 97.0
X Ray Diffraction 3.8349 4.2206 -- 132 2814 0.3044 0.3902 -- 95.0
X Ray Diffraction 4.2206 4.8309 -- 159 2841 0.2472 0.3636 -- 97.0
X Ray Diffraction 4.8309 6.0846 -- 165 2890 0.2729 0.3065 -- 99.0
X Ray Diffraction 6.0846 49.1104 -- 164 2902 0.2182 0.2558 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] -2.7709
Anisotropic B[1][2] 0.1923
Anisotropic B[1][3] -5.506
Anisotropic B[2][2] 9.7992
Anisotropic B[2][3] -8.1156
Anisotropic B[3][3] -7.0283
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 18.06
f_chiral_restr 0.126
f_bond_d 0.009
f_angle_d 1.738
f_plane_restr 0.007
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 9611
Nucleic Acid Atoms 0
Heterogen Atoms 54
Solvent Atoms 0

Software

Software
Software Name Purpose
PHENIX refinement version: 1.7_650
HKL-2000 data reduction
SCALEPACK data scaling
PHASER phasing