X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5.5
Temperature 285.0
Details 10-15% PEG 4K, 0.1 M sodium acetate buffer (pH 5.5), 0.1 M MgCl2, VAPOR DIFFUSION, HANGING DROP, temperature 285K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 133.14 α = 90
b = 133.14 β = 90
c = 133.67 γ = 90
Symmetry
Space Group P 43 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 300 mm CCD -- 2011-10-30
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 23-ID-B 1.0332 APS 23-ID-B

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
2.95 66.57 99.75 -- -- -- 8.4 26044 25980 0.0 0.0 --
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)
2.95 3.05 100.0 -- -- 3.8 8.4 --

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 2.945 66.57 -- 1.34 26044 25980 2011 99.8 -- 0.2116 0.2086 0.2483 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 2.9451 3.0188 -- 138 1672 0.3003 0.3863 -- 100.0
X Ray Diffraction 3.0188 3.1004 -- 143 1695 0.2743 0.2977 -- 100.0
X Ray Diffraction 3.1004 3.1916 -- 146 1669 0.2555 0.2886 -- 100.0
X Ray Diffraction 3.1916 3.2947 -- 141 1679 0.2558 0.3374 -- 100.0
X Ray Diffraction 3.2947 3.4124 -- 143 1692 0.2683 0.327 -- 100.0
X Ray Diffraction 3.4124 3.549 -- 140 1698 0.2352 0.2565 -- 100.0
X Ray Diffraction 3.549 3.7105 -- 140 1698 0.217 0.2581 -- 100.0
X Ray Diffraction 3.7105 3.9061 -- 141 1696 0.2085 0.2898 -- 100.0
X Ray Diffraction 3.9061 4.1508 -- 141 1707 0.1977 0.2207 -- 100.0
X Ray Diffraction 4.1508 4.4713 -- 146 1715 0.1847 0.213 -- 100.0
X Ray Diffraction 4.4713 4.9211 -- 144 1722 0.1722 0.2224 -- 100.0
X Ray Diffraction 4.9211 5.6329 -- 145 1741 0.1965 0.2271 -- 100.0
X Ray Diffraction 5.6329 7.0955 -- 149 1763 0.2274 0.2848 -- 100.0
X Ray Diffraction 7.0955 66.587 -- 154 1822 0.1821 0.2004 -- 97.0
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.003
f_chiral_restr 0.046
f_dihedral_angle_d 19.537
f_angle_d 0.763
f_bond_d 0.003
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3556
Nucleic Acid Atoms 981
Heterogen Atoms 0
Solvent Atoms 25

Software

Computing
Computing Package Purpose
MOSFLM Data Collection
MOSFLM Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (phenix.refine: dev_1352) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: dev_1352) refinement
PHASER model building
MOSFLM data collection