X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Evaporation Recrystallization
pH 8
Temperature 298.0
Details PEG 8000, 1.72 M ammonium slufate, 4 mM CaCl2, 100mM Tris-acetate , pH 8.0, EVAPORATION, RECRYSTALLIZATION, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 178.38 α = 90
b = 204.98 β = 90
c = 280.98 γ = 90
Symmetry
Space Group C 2 2 21

Diffraction

Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline

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
2.7 30.01 -- -- -- -- -- 123506 117825 -- -- --

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
FOURIER SYNTHESIS 2.7 30.0 -- 0.0 117825 117825 2966 -- 0.216 0.216 0.215 0.249 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 2.7 2.7696 -- 104 4270 0.327 0.368 -- --
X Ray Diffraction 2.77 2.8448 -- 136 5988 0.295 0.345 -- --
X Ray Diffraction 2.845 2.9265 -- 185 7102 0.284 0.305 -- --
X Ray Diffraction 2.927 3.0157 -- 180 7032 0.263 0.297 -- --
X Ray Diffraction 3.016 3.1135 -- 168 7055 0.246 0.275 -- --
X Ray Diffraction 3.114 3.2216 -- 177 6979 0.231 0.291 -- --
X Ray Diffraction 3.222 3.3417 -- 189 7037 0.22 0.252 -- --
X Ray Diffraction 3.342 3.4764 -- 186 6976 0.223 0.273 -- --
X Ray Diffraction 3.476 3.6287 -- 191 6994 0.213 0.236 -- --
X Ray Diffraction 3.629 3.8031 -- 171 6983 0.207 0.25 -- --
X Ray Diffraction 3.803 4.0052 -- 199 6673 0.197 0.22 -- --
X Ray Diffraction 4.005 4.2434 -- 159 6519 0.184 0.234 -- --
X Ray Diffraction 4.243 4.53 -- 135 6199 0.179 0.22 -- --
X Ray Diffraction 4.53 4.8836 -- 155 5753 0.189 0.24 -- --
X Ray Diffraction 4.884 5.3356 -- 155 5329 0.203 0.236 -- --
X Ray Diffraction 5.336 5.942 -- 136 4915 0.232 0.302 -- --
X Ray Diffraction 5.942 6.8168 -- 117 4365 0.24 0.282 -- --
X Ray Diffraction 6.817 8.2431 -- 87 3755 0.187 0.193 -- --
X Ray Diffraction 8.243 11.2409 -- 84 3012 0.15 0.149 -- --
X Ray Diffraction 11.241 30.0 -- 52 1923 0.29 0.264 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 2.604
Anisotropic B[1][1] -1.211
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.539
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 2.75
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 1.562
r_scbond_it 1.137
r_mcangle_it 0.489
r_mcbond_it 0.297
r_symmetry_hbond_refined 0.367
r_symmetry_vdw_refined 0.422
r_xyhbond_nbd_refined 0.175
r_gen_planes_refined 0.007
r_chiral_restr 0.134
r_dihedral_angle_1_deg 5.881
r_angle_refined_deg 2.043
r_bond_refined_d 0.027
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 26957
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 107

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
MLPHARE Structure Solution
REFMAC 5 Structure Refinement
Software
Software Name Purpose
REFMAC5 (CCP4: Supported Program) version: refmac_5.1.19 refinement