X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
Temperature 294.0
Details 100 mM MES pH 6.5, 0.16 M calcium acetate, 20 % PEG 8000, 20 % glycerol

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 63.31 α = 90
b = 68.49 β = 90
c = 111.63 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD RAYONIX MX300HE -- 2014-11-28
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON CLSI BEAMLINE 08ID-1 0.978 CLSI 08ID-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
2.15 27.91 94.0 0.083 -- -- 3.3 -- 25369 -- -- 25.75
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)
2.15 2.22 66.3 0.452 -- 2.0 2.1 1509

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 2.15 26.507 -- 1.35 -- 25327 1253 93.55 -- 0.1857 0.1826 0.2439 --
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 2.1501 2.2361 -- 115 1841 0.2524 0.3136 -- 66.0
X Ray Diffraction 2.2361 2.3378 -- 127 2333 0.2341 0.283 -- 83.0
X Ray Diffraction 2.3378 2.461 -- 144 2736 0.21 0.2805 -- 97.0
X Ray Diffraction 2.461 2.6151 -- 133 2783 0.1962 0.2676 -- 99.0
X Ray Diffraction 2.6151 2.8168 -- 133 2819 0.1965 0.2431 -- 99.0
X Ray Diffraction 2.8168 3.0998 -- 119 2859 0.1988 0.2604 -- 99.0
X Ray Diffraction 3.0998 3.5475 -- 125 2875 0.1767 0.2783 -- 99.0
X Ray Diffraction 3.5475 4.466 -- 169 2858 0.1531 0.2244 -- 100.0
X Ray Diffraction 4.466 26.509 -- 188 2970 0.1649 0.2032 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 33.2797
RMS Deviations
Key Refinement Restraint Deviation
f_chiral_restr 0.041
f_bond_d 0.008
f_dihedral_angle_d 14.202
f_angle_d 1.055
f_plane_restr 0.005
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3298
Nucleic Acid Atoms 0
Heterogen Atoms 23
Solvent Atoms 96

Software

Software
Software Name Purpose
xia2 data scaling version: 0.3.11
PHASER phasing
PHENIX refinement
PDB_EXTRACT data extraction version: 3.15
Aimless data scaling