X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion
pH 7.8
Temperature 277.0
Details 0.1 M Hepes, 29% PEG3000, pH 7.8, vapor diffusion, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 52 α = 90
b = 77.33 β = 102.5
c = 68.78 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2011-11-30
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRF BEAMLINE BL17U 1.000 SSRF BL17U

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 50 97.2 0.087 -- -- 3.8 -- 35037 -- -- --
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)
2.0 2.07 94.7 0.523 -- -- 3.7 3409

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 2.0001 39.22 -- 0.0 -- 33663 1905 93.48 -- 0.1835 0.1812 0.2225 --
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 2.0001 2.0501 -- 111 1972 0.2028 0.2678 -- 82.0
X Ray Diffraction 2.0501 2.1055 -- 130 2104 0.1953 0.234 -- 87.0
X Ray Diffraction 2.1055 2.1675 -- 131 2150 0.191 0.2673 -- 88.0
X Ray Diffraction 2.1675 2.2375 -- 130 2169 0.1835 0.2458 -- 90.0
X Ray Diffraction 2.2375 2.3174 -- 134 2212 0.1852 0.2491 -- 92.0
X Ray Diffraction 2.3174 2.4102 -- 137 2250 0.1799 0.2344 -- 94.0
X Ray Diffraction 2.4102 2.5199 -- 135 2299 0.1915 0.2835 -- 94.0
X Ray Diffraction 2.5199 2.6527 -- 139 2324 0.19 0.2455 -- 95.0
X Ray Diffraction 2.6527 2.8188 -- 137 2309 0.186 0.2413 -- 96.0
X Ray Diffraction 2.8188 3.0364 -- 141 2348 0.1907 0.2214 -- 97.0
X Ray Diffraction 3.0364 3.3418 -- 142 2374 0.1851 0.243 -- 97.0
X Ray Diffraction 3.3418 3.825 -- 144 2392 0.1718 0.2057 -- 98.0
X Ray Diffraction 3.825 4.8178 -- 146 2403 0.1566 0.1764 -- 99.0
X Ray Diffraction 4.8178 39.2279 -- 148 2452 0.1859 0.1931 -- 98.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 26.9313
Anisotropic B[1][1] -2.9185
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.9232
Anisotropic B[2][2] 3.5322
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.6137
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.004
f_bond_d 0.007
f_angle_d 0.998
f_chiral_restr 0.064
f_dihedral_angle_d 13.262
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4268
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 279

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
PHASER phasing
PHENIX refinement version: 1.6.2_432
PDB_EXTRACT data extraction version: 3.11
HKL-2000 data collection