X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7
Temperature 298.13
Details 20% PEG-3350, 0.05 HEPES sodium pH 7.0, 1% tryptone

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 47.24 α = 90
b = 56.49 β = 96.23
c = 75.54 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2011-10-23
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 8.2.1 1 ALS 8.2.1

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 19.65 98.6 0.047 -- -- 2.9 -- 26499 -- -- 34.37
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)
2.0 2.05 98.2 0.813 -- 1.7 3.0 1948

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
SAD 2.0 19.647 -- 1.34 -- 26479 1334 98.45 -- 0.2267 0.2245 0.2688 --
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 2.0001 2.0715 -- 146 2444 0.331 0.4071 -- 98.0
X Ray Diffraction 2.0715 2.1543 -- 112 2548 0.3159 0.3483 -- 98.0
X Ray Diffraction 2.1543 2.2522 -- 139 2460 0.29 0.3479 -- 98.0
X Ray Diffraction 2.2522 2.3708 -- 123 2522 0.2771 0.3717 -- 99.0
X Ray Diffraction 2.3708 2.519 -- 149 2470 0.2609 0.3052 -- 99.0
X Ray Diffraction 2.519 2.7131 -- 136 2521 0.267 0.371 -- 99.0
X Ray Diffraction 2.7131 2.9852 -- 129 2522 0.2532 0.3023 -- 99.0
X Ray Diffraction 2.9852 3.4153 -- 119 2534 0.2299 0.2595 -- 99.0
X Ray Diffraction 3.4153 4.2954 -- 137 2539 0.1875 0.2357 -- 99.0
X Ray Diffraction 4.2954 19.6479 -- 144 2585 0.1773 0.2006 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 54.59
RMS Deviations
Key Refinement Restraint Deviation
f_angle_d 1.072
f_dihedral_angle_d 14.432
f_plane_restr 0.005
f_chiral_restr 0.042
f_bond_d 0.007
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3158
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 129

Software

Software
Software Name Purpose
Aimless data reduction version: 0.3.6
PHENIX refinement
PDB_EXTRACT data extraction version: 3.15
XDS data scaling
PHASER phasing