X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5.2
Temperature 289.0
Details 0.1 M sodium acetate trihydrate, 5.6% PEG 4000, 10% isopropanol, pH 5.2, VAPOR DIFFUSION, HANGING DROP, temperature 289K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 71.12 α = 90
b = 48.43 β = 97.25
c = 189.69 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 120
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- 2007-07-15
Diffraction Radiation
Monochromator Protocol
Graphite MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 23-ID-B 0.979, 0.97179 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
2.05 47.04 92.0 -- -- -- -- -- 63039 11.66 6.39 --

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
MAD 2.05 47.04 -- 1.34 -- 63025 3158 77.0 -- 0.214 0.211 0.271 --
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 2.05 2.0759 -- 22 426 0.2925 0.2701 -- 13.0
X Ray Diffraction 2.0759 2.1084 -- 53 1128 0.2918 0.4115 -- 33.0
X Ray Diffraction 2.1084 2.1429 -- 53 1219 0.3048 0.3443 -- 37.0
X Ray Diffraction 2.1429 2.1799 -- 65 1346 0.29 0.3601 -- 40.0
X Ray Diffraction 2.1799 2.2195 -- 87 1521 0.2877 0.3441 -- 45.0
X Ray Diffraction 2.2195 2.2622 -- 97 1835 0.2755 0.3302 -- 55.0
X Ray Diffraction 2.2622 2.3084 -- 91 2044 0.2598 0.3561 -- 60.0
X Ray Diffraction 2.3084 2.3586 -- 130 2140 0.2837 0.3345 -- 65.0
X Ray Diffraction 2.3586 2.4134 -- 143 2455 0.2683 0.3249 -- 73.0
X Ray Diffraction 2.4134 2.4738 -- 141 2660 0.2717 0.389 -- 80.0
X Ray Diffraction 2.4738 2.5407 -- 143 2961 0.2705 0.3525 -- 86.0
X Ray Diffraction 2.5407 2.6154 -- 157 3115 0.2665 0.3226 -- 94.0
X Ray Diffraction 2.6154 2.6998 -- 148 3303 0.2595 0.2948 -- 97.0
X Ray Diffraction 2.6998 2.7963 -- 151 3292 0.2558 0.3213 -- 97.0
X Ray Diffraction 2.7963 2.9083 -- 166 3263 0.2487 0.3141 -- 97.0
X Ray Diffraction 2.9083 3.0406 -- 198 3299 0.2431 0.2989 -- 97.0
X Ray Diffraction 3.0406 3.2009 -- 182 3343 0.2277 0.2951 -- 99.0
X Ray Diffraction 3.2009 3.4014 -- 186 3336 0.2121 0.3183 -- 99.0
X Ray Diffraction 3.4014 3.6639 -- 184 3382 0.2002 0.2611 -- 100.0
X Ray Diffraction 3.6639 4.0324 -- 185 3412 0.1766 0.263 -- 100.0
X Ray Diffraction 4.0324 4.6155 -- 180 3399 0.1528 0.2159 -- 100.0
X Ray Diffraction 4.6155 5.8133 -- 193 3444 0.1864 0.2381 -- 100.0
X Ray Diffraction 5.8133 47.04 -- 203 3544 0.1831 0.2119 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 4.4375
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -5.7154
Anisotropic B[2][2] -2.7344
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.7031
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.005
f_chiral_restr 0.086
f_dihedral_angle_d 18.831
f_angle_d 1.327
f_bond_d 0.009
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 10568
Nucleic Acid Atoms 0
Heterogen Atoms 74
Solvent Atoms 385

Software

Computing
Computing Package Purpose
HKL-2000 Data Collection
HKL-2000 Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
SHARP Structure Solution
PHENIX (PHENIX.REFINE: 1.7.2_869) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.7.2_869) refinement
SHARP model building
HKL-2000 data collection