X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7
Temperature 296.0
Details 300mM Ammonium citrate tribasic, pH 7.0, 13% 1,3-Butanediol and 18%(v/v) PEG3350

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 154.88 α = 90
b = 69.13 β = 115.31
c = 108.84 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M -- 2016-05-30
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON PAL/PLS BEAMLINE 5C (4A) 0.97950 PAL/PLS 5C (4A)

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
3.14 49.2 100.0 0.075 -- -- 12.8 -- 18485 -- -- 77.18
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)
3.14 3.35 100.0 0.261 -- -- 12.9 3292

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 3.136 49.199 -- 1.36 -- 18456 1847 99.85 -- 0.2385 0.2341 0.2779 --
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 3.1357 3.2205 -- 138 1230 0.3184 0.4017 0.0 100.0
X Ray Diffraction 3.2205 3.3152 -- 142 1291 0.3012 0.4141 0.0 100.0
X Ray Diffraction 3.3152 3.4222 -- 138 1239 0.2895 0.3218 0.0 100.0
X Ray Diffraction 3.4222 3.5445 -- 143 1279 0.2764 0.3549 0.0 100.0
X Ray Diffraction 3.5445 3.6863 -- 143 1286 0.2757 0.3582 0.0 100.0
X Ray Diffraction 3.6863 3.854 -- 143 1286 0.2476 0.3058 0.0 100.0
X Ray Diffraction 3.854 4.0571 -- 141 1263 0.2384 0.2906 0.0 100.0
X Ray Diffraction 4.0571 4.3112 -- 140 1263 0.2211 0.2643 0.0 100.0
X Ray Diffraction 4.3112 4.6438 -- 140 1261 0.2091 0.2829 0.0 100.0
X Ray Diffraction 4.6438 5.1107 -- 143 1286 0.208 0.2695 0.0 100.0
X Ray Diffraction 5.1107 5.8492 -- 143 1292 0.2207 0.2469 0.0 100.0
X Ray Diffraction 5.8492 7.3654 -- 144 1297 0.2434 0.2561 0.0 100.0
X Ray Diffraction 7.3654 49.2047 -- 149 1336 0.2022 0.2101 0.0 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 75.0805
RMS Deviations
Key Refinement Restraint Deviation
f_bond_d 0.004
f_chiral_restr 0.057
f_angle_d 0.68
f_plane_restr 0.004
f_dihedral_angle_d 10.957
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6380
Nucleic Acid Atoms 0
Heterogen Atoms 70
Solvent Atoms 0

Software

Software
Software Name Purpose
PHENIX refinement version: 1.10.1_2155
SCALEPACK data scaling
PDB_EXTRACT data extraction version: 3.22
HKL-2000 data reduction
PHASER phasing