X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.7
Temperature 291.15
Details 2.4M KPO4, 50MM 2-HYDROXYETHYLDISULFIDE, 50MM 2-MERCAPTOETHANOL, PH 6.7

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 59.76 α = 90
b = 59.76 β = 90
c = 95.12 γ = 120
Symmetry
Space Group P 32 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 200K -- 2014-11-17
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU MICROMAX-003 1.54 -- --

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
1.46 29.88 98.0 0.065 -- -- 8.3 -- 34257 -- -- 11.14
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)
-- -- -- -- -- -- -- --

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 1.46 29.88 -- 1.335 -- 29981 1849 96.8 -- 0.182 0.18 0.207 --
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 1.46 1.4773 -- 97 1470 0.314 0.37 -- 65.0
X Ray Diffraction 1.4773 1.4968 -- 121 2082 0.287 0.326 -- 89.0
X Ray Diffraction 1.4968 1.5173 -- 136 2145 0.262 0.299 -- 94.0
X Ray Diffraction 1.5173 1.5389 -- 135 2207 0.252 0.254 -- 94.0
X Ray Diffraction 1.5389 1.5619 -- 136 2162 0.217 0.233 -- 95.0
X Ray Diffraction 1.5619 1.5863 -- 142 2180 0.192 0.201 -- 96.0
X Ray Diffraction 1.5863 1.6123 -- 136 2256 0.188 0.211 -- 97.0
X Ray Diffraction 1.6123 1.6401 -- 134 2225 0.186 0.215 -- 97.0
X Ray Diffraction 1.6401 1.6699 -- 135 2280 0.191 0.218 -- 97.0
X Ray Diffraction 1.6699 1.7021 -- 147 2289 0.184 0.224 -- 98.0
X Ray Diffraction 1.7021 1.7368 -- 137 2237 0.187 0.239 -- 98.0
X Ray Diffraction 1.7368 1.7746 -- 150 2280 0.187 0.199 -- 99.0
X Ray Diffraction 1.7746 1.8158 -- 144 2311 0.191 0.211 -- 99.0
X Ray Diffraction 1.8158 1.8612 -- 141 2300 0.187 0.217 -- 100.0
X Ray Diffraction 1.8612 1.9116 -- 136 2236 0.211 0.267 -- 99.0
X Ray Diffraction 1.9116 1.9678 -- 140 2288 0.202 0.246 -- 99.0
X Ray Diffraction 1.9678 2.0313 -- 130 2321 0.184 0.245 -- 100.0
X Ray Diffraction 2.0313 2.1039 -- 138 2279 0.191 0.205 -- 99.0
X Ray Diffraction 2.1039 2.1881 -- 145 2283 0.166 0.205 -- 100.0
X Ray Diffraction 2.1881 2.2876 -- 146 2292 0.177 0.208 -- 99.0
X Ray Diffraction 2.2876 2.4082 -- 145 2302 0.165 0.221 -- 100.0
X Ray Diffraction 2.4082 2.559 -- 142 2308 0.165 0.206 -- 100.0
X Ray Diffraction 2.559 2.7565 -- 148 2287 0.175 0.204 -- 100.0
X Ray Diffraction 2.7565 3.0336 -- 140 2336 0.174 0.208 -- 100.0
X Ray Diffraction 3.0336 3.472 -- 138 2297 0.158 0.182 -- 100.0
X Ray Diffraction 3.472 4.3722 -- 144 2297 0.137 0.149 -- 100.0
X Ray Diffraction 4.3722 29.88 -- 149 2313 0.182 0.175 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 15.2
RMS Deviations
Key Refinement Restraint Deviation
f_chiral_restr 0.04
f_plane_restr 0.005
f_dihedral_angle_d 11.882
f_bond_d 0.006
f_angle_d 1.01
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1291
Nucleic Acid Atoms 0
Heterogen Atoms 8
Solvent Atoms 317

Software

Software
Software Name Purpose
HKL-2000 data scaling
HKL-2000 data reduction
PHASER phasing
PHENIX refinement version: DEV_1839