X-RAY DIFFRACTION Experimental Data & Validation


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Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 4.8
Temperature 277.0
Details 8% PEG 4000, 0.1 M Sodium Acetate, pH 4.8, VAPOR DIFFUSION, HANGING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 59.3 α = 90
b = 102.35 β = 90
c = 138.51 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 85
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD BRUKER SMART 6000 Mirrors 2010-07-27
Diffraction Radiation
Monochromator Protocol
Osmic Mirrors SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RU300 1.54 -- --

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
2.2 100 99.9 0.0984 0.0984 -- 5.2 43677 43617 -3.0 -3.0 22.9
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 2.3 100.0 0.335 0.335 3.0 4.24 5359

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 42.087 -- 1.34 -- 43538 2117 99.86 -- 0.1831 0.1809 0.2268 --
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 2.2512 -- 147 2705 0.2197 0.3247 -- 100.0
X Ray Diffraction 2.2512 2.3075 -- 157 2712 0.2199 0.301 -- 100.0
X Ray Diffraction 2.3075 2.3699 -- 147 2721 0.2174 0.2646 -- 100.0
X Ray Diffraction 2.3699 2.4396 -- 141 2706 0.1955 0.2583 -- 100.0
X Ray Diffraction 2.4396 2.5183 -- 140 2739 0.1999 0.2352 -- 100.0
X Ray Diffraction 2.5183 2.6083 -- 139 2738 0.1928 0.2716 -- 100.0
X Ray Diffraction 2.6083 2.7127 -- 147 2727 0.1936 0.2586 -- 100.0
X Ray Diffraction 2.7127 2.8362 -- 147 2739 0.1865 0.2414 -- 100.0
X Ray Diffraction 2.8362 2.9857 -- 117 2783 0.1836 0.2381 -- 100.0
X Ray Diffraction 2.9857 3.1727 -- 158 2714 0.1825 0.2313 -- 100.0
X Ray Diffraction 3.1727 3.4175 -- 130 2779 0.1836 0.2072 -- 100.0
X Ray Diffraction 3.4175 3.7613 -- 140 2786 0.1637 0.2239 -- 100.0
X Ray Diffraction 3.7613 4.305 -- 138 2786 0.152 0.1481 -- 100.0
X Ray Diffraction 4.305 5.4221 -- 143 2823 0.1532 0.1932 -- 99.0
X Ray Diffraction 5.4221 42.0945 -- 126 2963 0.1854 0.22 -- 99.0
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.004
f_chiral_restr 0.07
f_dihedral_angle_d 13.415
f_angle_d 1.085
f_bond_d 0.007
Coordinate Error
Parameter Value
Luzzati Sigma A (Observed) 0.53
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6172
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 788

Software

Computing
Computing Package Purpose
PROTEUM PLUS Data Collection
PROTEUM PLUS Data Reduction (intensity integration)
PROTEUM PLUS Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (phenix.refine: 1.7.1_743) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.7.1_743) refinement
PHASER model building
PROTEUM version: PLUS data collection