X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7.5
Details 0.2 M SODIUM CITRATE, 0.1 M HEPES, 30 % MPD, pH 7.5

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 89.4 α = 90
b = 40.95 β = 90.15
c = 106.73 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
CCD ADSC CCD DOUBLE CRYSTAL CHANNEL CUT, SI(111), 1M LONG RH COATED TOROIDAL MIRROR FOR VERTICAL AND HORIZONTAL FOCUSING. 2011-05-01
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X6A -- NSLS X6A

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
1.75 30 79.4 0.07 -- -- 6.8 -- 31323 -- 0.0 17.22
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)
1.75 1.84 74.3 0.37 -- 2.1 7.2 --

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 1.75 34.224 -- 1.38 -- 31297 1588 79.46 -- 0.1689 0.1662 0.2185 --
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 1.75 1.8065 -- 119 2514 0.2028 0.2923 -- 74.0
X Ray Diffraction 1.8065 1.8711 -- 113 2507 0.1919 0.2804 -- 74.0
X Ray Diffraction 1.8711 1.946 -- 145 2467 0.1895 0.2374 -- 73.0
X Ray Diffraction 1.946 2.0345 -- 130 2479 0.1854 0.2594 -- 73.0
X Ray Diffraction 2.0345 2.1418 -- 133 2491 0.1823 0.2256 -- 74.0
X Ray Diffraction 2.1418 2.2759 -- 139 2495 0.1733 0.2433 -- 74.0
X Ray Diffraction 2.2759 2.4516 -- 142 2493 0.1823 0.2476 -- 74.0
X Ray Diffraction 2.4516 2.6982 -- 137 2609 0.1821 0.2582 -- 77.0
X Ray Diffraction 2.6982 3.0885 -- 172 2920 0.1741 0.2405 -- 86.0
X Ray Diffraction 3.0885 3.8903 -- 172 3287 0.1413 0.1857 -- 96.0
X Ray Diffraction 3.8903 34.2301 -- 186 3447 0.151 0.1768 -- 97.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 22.5
Anisotropic B[1][1] 0.2972
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0109
Anisotropic B[2][2] 0.8386
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.1357
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 14.68
f_plane_restr 0.006
f_bond_d 0.03
f_chiral_restr 0.146
f_angle_d 2.056
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3188
Nucleic Acid Atoms 0
Heterogen Atoms 41
Solvent Atoms 405

Software

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