X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7
Details 0.1 M HEPES, 30 % (V/V) POLYETHELENEGLYCOLEMONOMETHYLETHER, PH 7

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 78.76 α = 90
b = 112.01 β = 90
c = 227.34 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 MARMOSAIC 225 mm CCD MIRRORS 2012-02-14
Diffraction Radiation
Monochromator Protocol
RH-COATED SI MIRROR, BENT FOR VERTICAL COLLIMATION SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON MAX II BEAMLINE I911-5 -- MAX_II I911-5

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
2.5 28.98 99.9 0.08 -- -- 5.4 -- 70472 -- 3.0 39.74
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)
2.5 2.64 100.0 0.56 -- 4.0 5.4 --

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 2.5 28.855 -- 1.34 -- 70252 1416 99.79 -- 0.1834 0.1826 0.222 --
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 2.5 2.5893 -- 154 6772 0.2516 0.3072 -- 100.0
X Ray Diffraction 2.5893 2.6929 -- 154 6773 0.2283 0.2913 -- 100.0
X Ray Diffraction 2.6929 2.8154 -- 134 6819 0.2188 0.2521 -- 100.0
X Ray Diffraction 2.8154 2.9637 -- 136 6822 0.2017 0.2763 -- 100.0
X Ray Diffraction 2.9637 3.1492 -- 152 6812 0.2038 0.2251 -- 100.0
X Ray Diffraction 3.1492 3.392 -- 130 6883 0.2051 0.2611 -- 100.0
X Ray Diffraction 3.392 3.7327 -- 141 6867 0.1836 0.2211 -- 100.0
X Ray Diffraction 3.7327 4.2713 -- 140 6914 0.1496 0.1868 -- 100.0
X Ray Diffraction 4.2713 5.3757 -- 132 6985 0.1405 0.1623 -- 100.0
X Ray Diffraction 5.3757 28.857 -- 143 7189 0.1885 0.2164 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 10.8219
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 12.843
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -23.6649
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.005
f_chiral_restr 0.062
f_dihedral_angle_d 15.764
f_bond_d 0.004
f_angle_d 0.898
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 8294
Nucleic Acid Atoms 0
Heterogen Atoms 204
Solvent Atoms 628

Software

Software
Software Name Purpose
PHENIX refinement version: (PHENIX.REFINE)
XDS data reduction
SCALA data scaling
REFMAC phasing