X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5
Temperature 294.0
Details Sodium citrate, PEG 8000

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 54.08 α = 90
b = 72.42 β = 90
c = 82.53 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 110
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 300 mm CCD -- 2014-02-05
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 21-ID-D 1.078 APS 21-ID-D

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
1.85 50 99.5 0.054 -- 25.811 4.0 -- 27997 -- -- 22.58
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)
1.85 1.88 97.8 0.359 -- -- 3.7 1332

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 1.852 36.192 -- 1.36 -- 27171 1379 94.55 -- 0.1742 0.1721 0.2155 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 1.8552 1.9215 -- 113 2583 0.2121 0.272 -- 98.0
X Ray Diffraction 1.9215 1.9984 -- 138 2625 0.1899 0.2481 -- 100.0
X Ray Diffraction 1.9984 2.0893 -- 138 2631 0.1733 0.205 -- 100.0
X Ray Diffraction 2.0893 2.1995 -- 150 2626 0.1745 0.2296 -- 100.0
X Ray Diffraction 2.1995 2.3372 -- 134 2658 0.1719 0.2245 -- 100.0
X Ray Diffraction 2.3372 2.5176 -- 135 2639 0.1844 0.2256 -- 100.0
X Ray Diffraction 2.5176 2.7709 -- 145 2658 0.1887 0.2357 -- 100.0
X Ray Diffraction 2.7709 3.1715 -- 166 2664 0.1838 0.2446 -- 100.0
X Ray Diffraction 3.1715 3.9947 -- 150 2676 0.1559 0.2258 -- 100.0
X Ray Diffraction 3.9947 32.8097 -- 134 2791 0.1623 0.1581 -- 98.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 33.8325
RMS Deviations
Key Refinement Restraint Deviation
f_chiral_restr 0.041
f_angle_d 0.978
f_bond_d 0.007
f_plane_restr 0.004
f_dihedral_angle_d 14.393
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2347
Nucleic Acid Atoms 0
Heterogen Atoms 13
Solvent Atoms 222

Software

Software
Software Name Purpose
HKL-2000 data scaling
HKL-2000 data reduction
SCALEPACK data scaling
PHASER phasing version: 2.5.1
PHENIX refinement
Coot model building
PDB_EXTRACT data extraction version: 3.15