X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
Temperature 277.0
Details Sodium cacodylate, NaCl, PEG 8000, 1-butanol

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 151.31 α = 90
b = 151.31 β = 90
c = 85.95 γ = 90
Symmetry
Space Group P 4 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 300 mm CCD -- 2015-11-01
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 22-ID 0.9792 APS 22-ID

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
2.43 45.98 99.79 0.135 -- -- 12.1 -- 38009 -- -- --
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)
2.431 2.4919 99.89 0.89 -- 1.56 2.94 --

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 2.431 35.663 -- 1.36 -- 37983 1931 99.75 -- 0.2122 0.2114 0.2268 --
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 2.4311 2.4919 -- 127 2539 0.2695 0.3084 -- 100.0
X Ray Diffraction 2.4919 2.5592 -- 128 2553 0.2542 0.301 -- 100.0
X Ray Diffraction 2.5592 2.6345 -- 124 2532 0.2493 0.2828 -- 100.0
X Ray Diffraction 2.6345 2.7195 -- 149 2531 0.2453 0.2819 -- 100.0
X Ray Diffraction 2.7195 2.8167 -- 143 2551 0.2511 0.3043 -- 100.0
X Ray Diffraction 2.8167 2.9294 -- 135 2533 0.2427 0.2688 -- 100.0
X Ray Diffraction 2.9294 3.0627 -- 134 2566 0.2463 0.3186 -- 100.0
X Ray Diffraction 3.0627 3.2241 -- 142 2557 0.233 0.2413 -- 100.0
X Ray Diffraction 3.2241 3.4259 -- 135 2575 0.2344 0.2703 -- 100.0
X Ray Diffraction 3.4259 3.6902 -- 121 2582 0.2152 0.266 -- 100.0
X Ray Diffraction 3.6902 4.0611 -- 129 2598 0.2038 0.2229 -- 100.0
X Ray Diffraction 4.0611 4.6476 -- 155 2588 0.1792 0.2038 -- 100.0
X Ray Diffraction 4.6476 5.8513 -- 139 2645 0.1893 0.1714 -- 100.0
X Ray Diffraction 5.8513 35.667 -- 170 2702 0.1895 0.178 -- 98.0
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.006
f_dihedral_angle_d 15.17
f_bond_d 0.011
f_angle_d 1.207
f_chiral_restr 0.052
Coordinate Error
Parameter Value
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3745
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 131

Software

Software
Software Name Purpose
PHENIX refinement version: 1.9_1692
Coot model building
HKL-2000 data reduction
HKL-2000 data scaling
PHASER phasing