X-RAY DIFFRACTION Experimental Data & Validation


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Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.5
Temperature 293.0
Details 20.5% (w/v) PEG 4000, 0.2 M lithium sulfate monohydrate, 0.1 M Tris-HCl pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 79.54 α = 90
b = 92.97 β = 90
c = 140.92 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 77
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 300 mm CCD -- 2010-04-18
Diffraction Radiation
Monochromator Protocol
Si 220. Rosenbaum-Rock double-crystal monochromator SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 22-ID 1.0000 APS 22-ID

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
2.87 50 98.7 -- -- -- -- 24012 24012 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)
2.87 3.0 92.0 0.688 -- 1.8 5.1 --

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 2.872 25.543 -- 1.34 23958 23958 1228 97.95 -- 0.2026 0.1999 0.254 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 2.8723 2.9871 -- 128 2135 0.2762 0.3581 -- 85.0
X Ray Diffraction 2.9871 3.1228 -- 134 2470 0.2617 0.3183 -- 98.0
X Ray Diffraction 3.1228 3.2872 -- 130 2534 0.2335 0.3051 -- 100.0
X Ray Diffraction 3.2872 3.4926 -- 136 2545 0.2111 0.2642 -- 100.0
X Ray Diffraction 3.4926 3.7615 -- 128 2560 0.18 0.2294 -- 100.0
X Ray Diffraction 3.7615 4.1386 -- 144 2562 0.177 0.2187 -- 100.0
X Ray Diffraction 4.1386 4.7342 -- 144 2587 0.1481 0.2055 -- 100.0
X Ray Diffraction 4.7342 5.9521 -- 143 2603 0.1612 0.2112 -- 100.0
X Ray Diffraction 5.9521 25.5438 -- 141 2734 0.2077 0.2547 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 1.7007
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -6.5038
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 3.4449
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.003
f_chiral_restr 0.036
f_dihedral_angle_d 12.218
f_angle_d 0.558
f_bond_d 0.002
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6890
Nucleic Acid Atoms 0
Heterogen Atoms 35
Solvent Atoms 28

Software

Computing
Computing Package Purpose
SER-CAT Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (phenix.refine: 1.5_2) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.5_2) refinement
PHASER model building
SER-CAT data collection