X-RAY DIFFRACTION Experimental Data & Validation


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Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7
Temperature 277.0
Details 4.5% P8K, 50 mM MOPS pH7,3% I-prop, 3% tert-but,1mM TCEP, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 68.6 α = 90
b = 104.39 β = 91.15
c = 90.02 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
AREA DETECTOR ADSC QUANTUM 315r -- 2008-06-15
Diffraction Radiation
Monochromator Protocol
Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID23-1 0.97625 ESRF ID23-1

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
2.2 19.9 99.3 -- -- -- -- 64374 63904 -3.0 -3.0 --
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)
2.2 2.25 98.8 -- -- -- -- --

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 2.2 19.885 -- 0.0 64374 63899 3196 99.41 -- 0.1653 0.1626 0.218 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 2.2 2.2785 -- 316 5989 0.2078 0.2749 -- 99.0
X Ray Diffraction 2.2785 2.3696 -- 318 6050 0.2019 0.267 -- 99.0
X Ray Diffraction 2.3696 2.4772 -- 316 6010 0.1931 0.2562 -- 99.0
X Ray Diffraction 2.4772 2.6076 -- 319 6057 0.1836 0.2526 -- 99.0
X Ray Diffraction 2.6076 2.7705 -- 319 6063 0.1708 0.2481 -- 99.0
X Ray Diffraction 2.7705 2.9838 -- 320 6084 0.1613 0.2343 -- 100.0
X Ray Diffraction 2.9838 3.2828 -- 320 6071 0.1629 0.2267 -- 100.0
X Ray Diffraction 3.2828 3.7551 -- 321 6094 0.1628 0.2056 -- 100.0
X Ray Diffraction 3.7551 4.7206 -- 321 6108 0.1307 0.1725 -- 100.0
X Ray Diffraction 4.7206 19.885 -- 326 6177 0.1584 0.2068 -- 99.0
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.004
f_chiral_restr 0.071
f_dihedral_angle_d 13.596
f_angle_d 0.999
f_bond_d 0.007
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 7403
Nucleic Acid Atoms 0
Heterogen Atoms 90
Solvent Atoms 781

Software

Computing
Computing Package Purpose
DNA Data Collection
XDS Data Reduction (intensity integration)
XDS Data Reduction (data scaling)
Molrep Structure Solution
PHENIX (phenix.refine: 1.7.2_869) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.7.2_869) refinement
Molrep model building
DNA data collection