X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 4.6
Temperature 290.0
Details 0.1 M ammonium acetate, 0.1 M sodium acetate, 24-30% PEG 4000; crystals obtained by streak-seeding

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 45.13 α = 90
b = 72.87 β = 109.28
c = 52.72 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 2M -- 2016-02-10
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ELETTRA BEAMLINE 5.2R 1.0000 ELETTRA 5.2R

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
1.14 42.6 99.5 -- 0.033 -- 3.3 -- 116418 -- -- --
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)
1.14 1.21 99.1 0.488 -- 2.54 3.1 --

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 1.14 42.602 -- 1.36 -- 116378 5814 99.57 -- 0.1208 0.1195 0.1457 --
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 1.1404 1.1534 -- 187 3565 0.2123 0.214 -- 97.0
X Ray Diffraction 1.1534 1.167 -- 194 3667 0.1979 0.2295 -- 100.0
X Ray Diffraction 1.167 1.1812 -- 192 3649 0.1857 0.2271 -- 100.0
X Ray Diffraction 1.1812 1.1961 -- 195 3708 0.174 0.1877 -- 100.0
X Ray Diffraction 1.1961 1.2119 -- 193 3679 0.1634 0.1697 -- 100.0
X Ray Diffraction 1.2119 1.2285 -- 195 3686 0.1611 0.195 -- 100.0
X Ray Diffraction 1.2285 1.246 -- 191 3661 0.1482 0.1565 -- 100.0
X Ray Diffraction 1.246 1.2646 -- 194 3686 0.1407 0.1625 -- 100.0
X Ray Diffraction 1.2646 1.2844 -- 195 3698 0.1367 0.142 -- 100.0
X Ray Diffraction 1.2844 1.3055 -- 192 3657 0.1294 0.1619 -- 100.0
X Ray Diffraction 1.3055 1.328 -- 195 3694 0.1241 0.1621 -- 100.0
X Ray Diffraction 1.328 1.3521 -- 193 3662 0.1221 0.133 -- 99.0
X Ray Diffraction 1.3521 1.3781 -- 194 3686 0.1197 0.1444 -- 99.0
X Ray Diffraction 1.3781 1.4063 -- 192 3661 0.1093 0.1661 -- 100.0
X Ray Diffraction 1.4063 1.4368 -- 192 3646 0.1075 0.1274 -- 100.0
X Ray Diffraction 1.4368 1.4703 -- 196 3711 0.0971 0.1098 -- 100.0
X Ray Diffraction 1.4703 1.507 -- 195 3706 0.0964 0.113 -- 100.0
X Ray Diffraction 1.507 1.5478 -- 194 3684 0.0883 0.1206 -- 100.0
X Ray Diffraction 1.5478 1.5933 -- 194 3684 0.0854 0.1036 -- 100.0
X Ray Diffraction 1.5933 1.6448 -- 193 3680 0.0854 0.1009 -- 100.0
X Ray Diffraction 1.6448 1.7036 -- 195 3688 0.0888 0.12 -- 100.0
X Ray Diffraction 1.7036 1.7718 -- 195 3707 0.0909 0.124 -- 100.0
X Ray Diffraction 1.7718 1.8524 -- 193 3688 0.0939 0.1192 -- 100.0
X Ray Diffraction 1.8524 1.9501 -- 195 3700 0.0954 0.1175 -- 100.0
X Ray Diffraction 1.9501 2.0722 -- 194 3697 0.0922 0.1081 -- 100.0
X Ray Diffraction 2.0722 2.2322 -- 194 3698 0.096 0.121 -- 100.0
X Ray Diffraction 2.2322 2.4568 -- 195 3705 0.1097 0.1288 -- 99.0
X Ray Diffraction 2.4568 2.8123 -- 194 3713 0.121 0.16 -- 100.0
X Ray Diffraction 2.8123 3.5429 -- 195 3726 0.1306 0.153 -- 100.0
X Ray Diffraction 3.5429 42.6312 -- 198 3772 0.1506 0.1894 -- 99.0
RMS Deviations
Key Refinement Restraint Deviation
f_chiral_restr 0.068
f_angle_d 1.228
f_dihedral_angle_d 10.572
f_plane_restr 0.006
f_bond_d 0.007
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2372
Nucleic Acid Atoms 0
Heterogen Atoms 60
Solvent Atoms 343

Software

Software
Software Name Purpose
PHENIX refinement version: 1.8.4_1492
Coot model building
XSCALE data scaling
PHASER phasing