X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.5
Temperature 293.0
Details 17% PEG 8000, 0.1M Tris-Cl (pH 8.5), 0.1M NaCl, 3% galactose, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 180.37 α = 90
b = 180.37 β = 90
c = 222.53 γ = 120
Symmetry
Space Group P 32 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 225 mm CCD -- 2010-03-11
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 22-BM 1 APS 22-BM

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
3.33 50 81.5 -- 0.156 -- 5.1 -- 49978 -- 1.0 --
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)
3.325 3.36 43.6 -- 0.449 1.95 2.8 1322

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 3.325 22.375 -- 1.34 -- 47907 2452 77.6 -- 0.2397 0.2365 0.2991 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 3.325 3.3891 820 38 782 0.3436 0.3698 -- 24.0
X Ray Diffraction 3.3891 3.4581 1431 55 1376 0.3217 0.4289 -- 42.0
X Ray Diffraction 3.4581 3.533 1633 89 1544 0.322 0.3463 -- 48.0
X Ray Diffraction 3.533 3.6148 1786 108 1678 0.3275 0.3808 -- 53.0
X Ray Diffraction 3.6148 3.7048 1982 107 1875 0.3073 0.3885 -- 59.0
X Ray Diffraction 3.7048 3.8045 2213 106 2107 0.3026 0.3576 -- 65.0
X Ray Diffraction 3.8045 3.9159 2448 111 2337 0.2828 0.3593 -- 71.0
X Ray Diffraction 3.9159 4.0416 2684 127 2557 0.2841 0.3591 -- 79.0
X Ray Diffraction 4.0416 4.1851 2883 149 2734 0.2572 0.3167 -- 84.0
X Ray Diffraction 4.1851 4.3515 3069 163 2906 0.2203 0.2529 -- 90.0
X Ray Diffraction 4.3515 4.548 3172 185 2987 0.1965 0.3014 -- 93.0
X Ray Diffraction 4.548 4.7856 3257 172 3085 0.1954 0.2788 -- 95.0
X Ray Diffraction 4.7856 5.0821 3286 178 3108 0.1927 0.2269 -- 96.0
X Ray Diffraction 5.0821 5.4692 3339 161 3178 0.1934 0.2903 -- 97.0
X Ray Diffraction 5.4692 6.0099 3394 164 3230 0.2253 0.305 -- 98.0
X Ray Diffraction 6.0099 6.8576 3448 175 3273 0.2291 0.3296 -- 99.0
X Ray Diffraction 6.8576 8.5586 3476 184 3292 0.2271 0.2633 -- 99.0
X Ray Diffraction 8.5586 22.3754 3586 180 3406 0.2278 0.2594 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] -25.0592
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -25.0592
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 50.1185
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.003
f_chiral_restr 0.04
f_dihedral_angle_d 9.863
f_angle_d 0.577
f_bond_d 0.003
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 19449
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 0

Software

Computing
Computing Package Purpose
SER-CAT Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (phenix.refine: 1.6.4_486) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.6.4_486) refinement
PHASER model building
SER-CAT data collection