X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.7
Details 11% PEG 8000, 4% PEG 400, 50 MM IMIDAZOLE, 10 MM SPERMINE, 15 MM MGSO4, 100 MM AMMONIUM SULFATE, AND 5 MM TRIS(2-CARBOXYETHYL)PHOSPHINE, PH 6.7, VAPOR DIFFUSION, TEMPERATURE 277.0K , VAPOR DIFFUSION, HANGING DROP

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 163.05 α = 90
b = 72.65 β = 100.85
c = 109.48 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 270 -- 2008-12-20
Diffraction Radiation
Monochromator Protocol
SI 111 CHANNEL SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON CHESS BEAMLINE F1 0.917 CHESS F1

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
1.8 50 97.9 0.074 -- -- 4.4 119988 117469 -2.0 -- --
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)
1.8 1.83 84.6 0.735 -- -- 3.3 --

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 1.8 38.0 -- 1.34 -- 114627 2123 98.41 -- 0.1792 0.1788 0.1989 --
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 1.8 1.8391 -- 132 6786 0.2953 0.3098 -- 96.0
X Ray Diffraction 1.8391 1.8819 -- 129 6799 0.2716 0.2703 -- 96.0
X Ray Diffraction 1.8819 1.929 -- 137 6871 0.2454 0.2603 -- 97.0
X Ray Diffraction 1.929 1.9811 -- 140 6945 0.2281 0.2124 -- 97.0
X Ray Diffraction 1.9811 2.0394 -- 139 6913 0.2075 0.2208 -- 98.0
X Ray Diffraction 2.0394 2.1053 -- 137 6951 0.1956 0.2428 -- 98.0
X Ray Diffraction 2.1053 2.1805 -- 150 7004 0.1888 0.2352 -- 98.0
X Ray Diffraction 2.1805 2.2678 -- 140 7049 0.1814 0.2262 -- 99.0
X Ray Diffraction 2.2678 2.371 -- 163 7001 0.1781 0.1889 -- 99.0
X Ray Diffraction 2.371 2.496 -- 162 7094 0.1797 0.2206 -- 100.0
X Ray Diffraction 2.496 2.6523 -- 144 7074 0.1751 0.2079 -- 100.0
X Ray Diffraction 2.6523 2.857 -- 164 7098 0.1806 0.2222 -- 100.0
X Ray Diffraction 2.857 3.1444 -- 173 7128 0.184 0.2275 -- 100.0
X Ray Diffraction 3.1444 3.5991 -- 135 7165 0.1757 0.1977 -- 100.0
X Ray Diffraction 3.5991 4.5333 -- 123 7235 0.1556 0.1564 -- 100.0
X Ray Diffraction 4.5333 38.0082 -- 123 7223 0.1688 0.1637 -- 98.0
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.01
f_chiral_restr 0.084
f_dihedral_angle_d 14.68
f_angle_d 1.441
f_bond_d 0.014
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 7929
Nucleic Acid Atoms 0
Heterogen Atoms 89
Solvent Atoms 689

Software

Computing
Computing Package Purpose
ADX Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
PHENIX (phenix.refine: 1.8_1069) Structure Solution
PHENIX (phenix.refine: 1.8_1069) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.8_1069) refinement
PHENIX version: (phenix.refine: 1.8_1069) model building
ADX data collection