X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7
Temperature 298.0
Details 20% PEG 3350, 200mM Calcium Chloride, pH 7, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 52.42 α = 97.41
b = 52.22 β = 93.19
c = 134.55 γ = 115.71
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 110
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 300 mm CCD beryllium lens 2011-02-17
Diffraction Radiation
Monochromator Protocol
C(111) diamond laue monochromator SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 21-ID-G 0.97857 APS 21-ID-G

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
1.7 50 99.3 0.099 -- -- 5.7 143723 142717 1.5 2.3 --
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)
1.7 1.76 98.8 0.624 -- 2.3 4.5 --

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 1.7 29.406 -- 1.44 139167 138207 6928 99.31 -- 0.188 0.1862 0.2209 --
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 1.7 1.7193 -- 232 4295 0.3027 0.3557 -- 98.0
X Ray Diffraction 1.7193 1.7395 -- 227 4509 0.2747 0.3168 -- 100.0
X Ray Diffraction 1.7395 1.7608 -- 230 4254 0.2565 0.2773 -- 100.0
X Ray Diffraction 1.7608 1.783 -- 256 4439 0.2476 0.3166 -- 100.0
X Ray Diffraction 1.783 1.8065 -- 214 4473 0.2412 0.2681 -- 100.0
X Ray Diffraction 1.8065 1.8312 -- 238 4313 0.2275 0.2818 -- 100.0
X Ray Diffraction 1.8312 1.8574 -- 243 4490 0.2088 0.2813 -- 100.0
X Ray Diffraction 1.8574 1.8851 -- 216 4366 0.198 0.2399 -- 100.0
X Ray Diffraction 1.8851 1.9146 -- 238 4358 0.1929 0.2383 -- 100.0
X Ray Diffraction 1.9146 1.946 -- 219 4414 0.1951 0.2538 -- 100.0
X Ray Diffraction 1.946 1.9795 -- 251 4357 0.1837 0.2405 -- 100.0
X Ray Diffraction 1.9795 2.0155 -- 226 4451 0.1738 0.2305 -- 100.0
X Ray Diffraction 2.0155 2.0542 -- 224 4360 0.1711 0.2329 -- 99.0
X Ray Diffraction 2.0542 2.0962 -- 243 4409 0.1637 0.1818 -- 100.0
X Ray Diffraction 2.0962 2.1417 -- 231 4330 0.1716 0.212 -- 100.0
X Ray Diffraction 2.1417 2.1915 -- 232 4421 0.1788 0.2 -- 100.0
X Ray Diffraction 2.1915 2.2463 -- 231 4339 0.1748 0.2149 -- 99.0
X Ray Diffraction 2.2463 2.307 -- 226 4386 0.1777 0.2137 -- 99.0
X Ray Diffraction 2.307 2.3749 -- 230 4402 0.1796 0.2158 -- 99.0
X Ray Diffraction 2.3749 2.4515 -- 239 4314 0.1906 0.241 -- 99.0
X Ray Diffraction 2.4515 2.5391 -- 234 4401 0.1876 0.2627 -- 99.0
X Ray Diffraction 2.5391 2.6407 -- 220 4410 0.1902 0.2329 -- 100.0
X Ray Diffraction 2.6407 2.7608 -- 242 4397 0.1934 0.2403 -- 99.0
X Ray Diffraction 2.7608 2.9062 -- 241 4333 0.1799 0.1922 -- 99.0
X Ray Diffraction 2.9062 3.0881 -- 218 4360 0.1804 0.2147 -- 99.0
X Ray Diffraction 3.0881 3.3263 -- 221 4293 0.185 0.2323 -- 98.0
X Ray Diffraction 3.3263 3.6604 -- 231 4348 0.1715 0.2126 -- 99.0
X Ray Diffraction 3.6604 4.1888 -- 227 4346 0.1561 0.1751 -- 99.0
X Ray Diffraction 4.1888 5.2725 -- 231 4333 0.1544 0.1665 -- 98.0
X Ray Diffraction 5.2725 29.4108 -- 217 4378 0.2317 0.2338 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] -1.8711
Anisotropic B[1][2] 4.2143
Anisotropic B[1][3] 0.7143
Anisotropic B[2][2] 1.6205
Anisotropic B[2][3] -0.098
Anisotropic B[3][3] 0.2506
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.004
f_bond_d 0.009
f_angle_d 1.12
f_chiral_restr 0.078
f_dihedral_angle_d 11.482
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 9098
Nucleic Acid Atoms 0
Heterogen Atoms 9
Solvent Atoms 1728

Software

Software
Software Name Purpose
PHENIX refinement version: 1.7_650
PDB_EXTRACT data extraction version: 3.10
BLU-MAX data collection
HKL-2000 data reduction
HKL-2000 data scaling
MrBUMP/MolRep phasing