X-RAY DIFFRACTION Experimental Data & Validation


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Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5.6
Temperature 298.0
Details 100mM sodium citrate, 5mM DTT, 100mM MgCl2, 16-18% PEG 3350, 2mM GTP, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 45.31 α = 90
b = 66.78 β = 90
c = 119.55 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 130
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M -- 2012-09-26
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X25 1.1 NSLS X25

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
2.14 39.6 100.0 -- -- -- -- 20889 20889 -999.0 -999.0 --
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)
2.14 2.26 100.0 -- -- -- -- --

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
Direct refinement 2.14 37.492 -- 1.34 20871 20830 1642 98.32 -- 0.1705 0.1675 0.2046 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 2.14 2.1855 -- 104 1270 0.1648 0.1976 -- 80.0
X Ray Diffraction 2.1855 2.256 -- 138 1608 0.1609 0.2229 -- 100.0
X Ray Diffraction 2.256 2.3367 -- 136 1574 0.1636 0.2234 -- 100.0
X Ray Diffraction 2.3367 2.4302 -- 137 1594 0.1755 0.25 -- 100.0
X Ray Diffraction 2.4302 2.5408 -- 139 1615 0.172 0.2273 -- 100.0
X Ray Diffraction 2.5408 2.6747 -- 139 1624 0.1853 0.2263 -- 100.0
X Ray Diffraction 2.6747 2.8422 -- 139 1601 0.1761 0.2253 -- 100.0
X Ray Diffraction 2.8422 3.0616 -- 137 1615 0.1885 0.2082 -- 100.0
X Ray Diffraction 3.0616 3.3695 -- 139 1624 0.1798 0.2263 -- 100.0
X Ray Diffraction 3.3695 3.8567 -- 142 1649 0.1656 0.1843 -- 100.0
X Ray Diffraction 3.8567 4.8573 -- 142 1652 0.143 0.1712 -- 100.0
X Ray Diffraction 4.8573 37.498 -- 150 1762 0.165 0.1921 -- 100.0
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.004
f_chiral_restr 0.059
f_dihedral_angle_d 15.563
f_angle_d 0.996
f_bond_d 0.005
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2734
Nucleic Acid Atoms 0
Heterogen Atoms 66
Solvent Atoms 180

Software

Computing
Computing Package Purpose
CBASS Data Collection
MOSFLM Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
PHENIX Structure Solution
PHENIX (phenix.refine: 1.8.1_1168) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.8.1_1168) refinement
PHENIX model building
CBASS data collection