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 (MX-225) MARRESEARCH 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_angle_d 0.898
f_bond_d 0.004
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

Computing
Computing Package Purpose
XDS Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
REFMAC Structure Solution
PHENIX (PHENIX.REFINE) Structure Refinement
Software
Software Name Purpose
PHENIX version: (PHENIX.REFINE) refinement
REFMAC model building