X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Microbatch
pH 6.5
Temperature 298.0
Details ammonium sulfate, pH 6.5, MICROBATCH, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 106.56 α = 90
b = 110.51 β = 90
c = 127.12 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD RAYONIX MX300HE -- 2011-06-17
Diffraction Radiation
Monochromator Protocol
double crystal SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON CLSI BEAMLINE 08B1-1 0.97949 CLSI 08B1-1

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
1.6 83.4 100.0 -- 0.061 -- 7.3 197386 197386 -3.0 -3.0 17.97
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)
1.6 1.69 100.0 0.696 0.696 1.1 6.9 28564

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 1.6 45.763 -- 1.35 197386 197274 9934 99.98 -- 0.1858 0.1839 0.2144 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 1.6 1.6182 -- 343 6142 0.2462 0.286 -- 100.0
X Ray Diffraction 1.6182 1.6372 -- 344 6173 0.2388 0.2724 -- 100.0
X Ray Diffraction 1.6372 1.6572 -- 348 6185 0.2356 0.275 -- 100.0
X Ray Diffraction 1.6572 1.6782 -- 319 6203 0.228 0.2732 -- 100.0
X Ray Diffraction 1.6782 1.7003 -- 312 6202 0.2217 0.2587 -- 100.0
X Ray Diffraction 1.7003 1.7235 -- 315 6208 0.217 0.2372 -- 100.0
X Ray Diffraction 1.7235 1.7482 -- 323 6219 0.2203 0.254 -- 100.0
X Ray Diffraction 1.7482 1.7743 -- 376 6102 0.215 0.2594 -- 100.0
X Ray Diffraction 1.7743 1.802 -- 321 6218 0.2087 0.2267 -- 100.0
X Ray Diffraction 1.802 1.8315 -- 312 6227 0.2059 0.2527 -- 100.0
X Ray Diffraction 1.8315 1.8631 -- 316 6203 0.203 0.2368 -- 100.0
X Ray Diffraction 1.8631 1.897 -- 339 6192 0.2 0.2371 -- 100.0
X Ray Diffraction 1.897 1.9335 -- 321 6227 0.1986 0.2439 -- 100.0
X Ray Diffraction 1.9335 1.9729 -- 318 6234 0.1966 0.2254 -- 100.0
X Ray Diffraction 1.9729 2.0158 -- 316 6227 0.1944 0.2368 -- 100.0
X Ray Diffraction 2.0158 2.0627 -- 329 6174 0.1947 0.2243 -- 100.0
X Ray Diffraction 2.0627 2.1143 -- 317 6233 0.1912 0.242 -- 100.0
X Ray Diffraction 2.1143 2.1715 -- 329 6262 0.1942 0.2153 -- 100.0
X Ray Diffraction 2.1715 2.2354 -- 316 6244 0.1892 0.2405 -- 100.0
X Ray Diffraction 2.2354 2.3075 -- 365 6205 0.1892 0.218 -- 100.0
X Ray Diffraction 2.3075 2.39 -- 340 6202 0.19 0.2302 -- 100.0
X Ray Diffraction 2.39 2.4857 -- 344 6255 0.192 0.2341 -- 100.0
X Ray Diffraction 2.4857 2.5988 -- 316 6285 0.1871 0.2389 -- 100.0
X Ray Diffraction 2.5988 2.7358 -- 322 6258 0.1891 0.2264 -- 100.0
X Ray Diffraction 2.7358 2.9072 -- 322 6296 0.1845 0.2013 -- 100.0
X Ray Diffraction 2.9072 3.1316 -- 334 6292 0.1866 0.2045 -- 100.0
X Ray Diffraction 3.1316 3.4467 -- 367 6315 0.1697 0.1959 -- 100.0
X Ray Diffraction 3.4467 3.9452 -- 305 6365 0.1581 0.1885 -- 100.0
X Ray Diffraction 3.9452 4.9695 -- 353 6369 0.1452 0.1516 -- 100.0
X Ray Diffraction 4.9695 45.7822 -- 352 6623 0.1768 0.212 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 23.3144
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.007
f_chiral_restr 0.142
f_bond_d 0.029
f_dihedral_angle_d 14.659
f_angle_d 1.951
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 10488
Nucleic Acid Atoms 0
Heterogen Atoms 236
Solvent Atoms 1052

Software

Software
Software Name Purpose
SCALA data scaling version: 3.3.16
MOLREP phasing
PHENIX refinement version: 1.8.2_1309
PDB_EXTRACT data extraction version: 3.11
MxDC data collection
XDS data reduction