X-RAY DIFFRACTION Experimental Data & Validation


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Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 291.0
Details 100mM sodium cacodylate 6.5, 25% Jeffamine ED2001, 5mM MgCl2, 8mM BaCl2, VAPOR DIFFUSION, HANGING DROP, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 117.62 α = 90
b = 78.38 β = 100.58
c = 140.57 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 QUANTUM 315r mirrors 2013-06-13
Diffraction Radiation
Monochromator Protocol
Si 111 CHANNEL SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRF BEAMLINE BL17U 0.9791 SSRF BL17U

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
2.78 40 98.4 -- -- -- -- 31677 31170 1.0 1.0 --
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)
2.781 2.9 99.6 -- -- -- -- --

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 2.781 39.189 -- 1.34 31831 31163 1576 97.9 -- 0.2465 0.2447 0.2784 random
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 2.781 2.8707 -- 120 2573 0.3629 0.4029 -- 94.0
X Ray Diffraction 2.8707 2.9733 -- 147 2725 0.3327 0.3946 -- 100.0
X Ray Diffraction 2.9733 3.0923 -- 143 2709 0.318 0.3691 -- 100.0
X Ray Diffraction 3.0923 3.233 -- 131 2719 0.2886 0.3293 -- 99.0
X Ray Diffraction 3.233 3.4033 -- 138 2735 0.2591 0.3146 -- 99.0
X Ray Diffraction 3.4033 3.6164 -- 147 2686 0.2523 0.282 -- 99.0
X Ray Diffraction 3.6164 3.8954 -- 140 2723 0.2538 0.3014 -- 98.0
X Ray Diffraction 3.8954 4.287 -- 160 2659 0.2299 0.2819 -- 98.0
X Ray Diffraction 4.287 4.9063 -- 145 2691 0.1742 0.2099 -- 97.0
X Ray Diffraction 4.9063 6.1775 -- 172 2664 0.2433 0.2587 -- 98.0
X Ray Diffraction 6.1775 39.1934 -- 133 2703 0.2488 0.2662 -- 95.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 9.536
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -10.0121
Anisotropic B[2][2] -3.4226
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 11.1968
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.004
f_chiral_restr 0.085
f_dihedral_angle_d 20.517
f_angle_d 1.269
f_bond_d 0.009
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 8089
Nucleic Acid Atoms 206
Heterogen Atoms 0
Solvent Atoms 0

Software

Computing
Computing Package Purpose
CBASS Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (phenix.refine: 1.7.3_928) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.7.3_928) refinement
PHASER model building
CBASS data collection