X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 9
Temperature 291.0
Details 100 mM bicine pH 9, 100 mM NaCl, 19 % PEG MME 550

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 40.72 α = 90
b = 54.14 β = 90
c = 218.85 γ = 90
Symmetry
Space Group P 2 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
2 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2016-05-01
CCD MARMOSAIC 325 mm CCD -- 2016-06-09
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 8.2.2 0.9795 ALS 8.2.2
SYNCHROTRON SSRL BEAMLINE BL14-1 1.1270 SSRL BL14-1

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
2.68 72.95 99.3 -- -- -- 13.4 -- 14269 -- -- 42.9596
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)
2.68 2.83 94.9 -- -- 2.6 13.8 --

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 2.68 54.71 -- 1.33 -- 14212 1420 99.23 -- 0.2107 0.2046 0.2651 --
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 2.68 2.77 -- 127 1150 0.2576 0.3108 -- 92.5362
X Ray Diffraction 2.77 2.89 -- 141 1275 0.2541 0.3189 -- 99.9294
X Ray Diffraction 2.89 3.02 -- 138 1247 0.2442 0.3021 -- 99.9278
X Ray Diffraction 3.02 3.18 -- 143 1285 0.2337 0.3272 -- 100.0
X Ray Diffraction 3.18 3.38 -- 141 1273 0.2282 0.3035 -- 100.0
X Ray Diffraction 3.38 3.64 -- 140 1260 0.2 0.2623 -- 99.9286
X Ray Diffraction 3.64 4.01 -- 143 1280 0.1896 0.2523 -- 99.9298
X Ray Diffraction 4.01 4.59 -- 144 1299 0.1648 0.2353 -- 99.8616
X Ray Diffraction 4.59 5.77 -- 146 1316 0.1739 0.2051 -- 100.0
X Ray Diffraction 5.77 54.72 -- 157 1407 0.2178 0.2736 -- 99.9361
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 56.2
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.0022496
f_dihedral_angle_d 17.1003
f_chiral_restr 0.0825226
f_bond_d 0.0020485
f_angle_d 0.511425
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3989
Nucleic Acid Atoms 0
Heterogen Atoms 23
Solvent Atoms 67

Software

Software
Software Name Purpose
Blu-Ice data collection
MOSFLM data reduction
Aimless data scaling
PHASER phasing
Coot model building
PHENIX refinement version: 1.12_2829