X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 4.2
Temperature 295.0
Details 100mM phophate-acetate pH 4.2, 200mM NaCl, 20%(w/w) PEG 8000, VAPOR DIFFUSION, HANGING DROP, temperature 295K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 56.36 α = 90
b = 56.36 β = 90
c = 82.6 γ = 120
Symmetry
Space Group P 31 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 210r -- 2007-06-23
Diffraction Radiation
Monochromator Protocol
Double-crystal Si(111) liquid-nitrogen-cooled SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON PHOTON FACTORY BEAMLINE AR-NW12A 0.97923 PHOTON FACTORY AR-NW12A

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
2.39 50 -- -- 0.069 -- 10.1 -- 11556 1.0 1.0 60.27

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 2.392 31.527 -- 1.36 -- 11556 1158 99.55 -- 0.2547 0.2484 0.3095 --
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 2.3922 2.501 -- 157 1293 0.2811 0.3956 -- 98.0
X Ray Diffraction 2.501 2.6328 -- 144 1282 0.2767 0.3327 -- 100.0
X Ray Diffraction 2.6328 2.7977 -- 132 1326 0.2777 0.3831 -- 100.0
X Ray Diffraction 2.7977 3.0136 -- 138 1289 0.2656 0.3796 -- 100.0
X Ray Diffraction 3.0136 3.3165 -- 164 1321 0.2549 0.3316 -- 100.0
X Ray Diffraction 3.3165 3.7957 -- 135 1298 0.2236 0.267 -- 100.0
X Ray Diffraction 3.7957 4.7796 -- 146 1303 0.2244 0.2632 -- 100.0
X Ray Diffraction 4.7796 31.5297 -- 142 1286 0.2637 0.3254 -- 98.0
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.004
f_chiral_restr 0.07
f_dihedral_angle_d 18.18
f_angle_d 1.19
f_bond_d 0.009
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 946
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 34

Software

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