X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7.4
Details 20% w/v PEG 3350, 0.2M Potassium Formate, pH 7.4, VAPOR DIFFUSION, SITTING DROP, temperature 100K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 57.57 α = 90
b = 147.87 β = 112.05
c = 57.85 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
AREA DETECTOR ADSC QUANTUM 315r -- 2011-11-11
Diffraction Radiation
Monochromator Protocol
SI(220) ASYMMETRIC CUT SINGLE CRYSTAL SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 5.0.1 -- ALS 5.0.1

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
1.5 43.41 97.3 0.066 -- -- -- -- 139069 -- 2.0 19.9
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)
1.5 1.54 93.1 0.413 -- 3.94 -- --

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 1.5 43.41 -- 1.37 146018 139061 6957 97.5 -- 0.16 0.158 0.182 --
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 1.5 1.5171 -- 213 4139 0.2433 0.2844 -- 92.0
X Ray Diffraction 1.5171 1.5349 -- 223 4197 0.2135 0.259 -- 94.0
X Ray Diffraction 1.5349 1.5536 -- 221 4255 0.2091 0.239 -- 94.0
X Ray Diffraction 1.5536 1.5733 -- 227 4309 0.192 0.2313 -- 95.0
X Ray Diffraction 1.5733 1.594 -- 230 4278 0.1866 0.2262 -- 96.0
X Ray Diffraction 1.594 1.6158 -- 237 4362 0.1878 0.2139 -- 96.0
X Ray Diffraction 1.6158 1.6389 -- 219 4335 0.1819 0.231 -- 97.0
X Ray Diffraction 1.6389 1.6634 -- 235 4368 0.1759 0.1958 -- 97.0
X Ray Diffraction 1.6634 1.6894 -- 232 4409 0.1695 0.2142 -- 97.0
X Ray Diffraction 1.6894 1.7171 -- 228 4339 0.1671 0.2083 -- 97.0
X Ray Diffraction 1.7171 1.7467 -- 232 4439 0.1648 0.1891 -- 97.0
X Ray Diffraction 1.7467 1.7784 -- 228 4357 0.1632 0.1965 -- 98.0
X Ray Diffraction 1.7784 1.8126 -- 232 4406 0.1504 0.1857 -- 97.0
X Ray Diffraction 1.8126 1.8496 -- 234 4438 0.1502 0.1718 -- 98.0
X Ray Diffraction 1.8496 1.8899 -- 233 4381 0.1518 0.157 -- 98.0
X Ray Diffraction 1.8899 1.9338 -- 229 4452 0.1574 0.1663 -- 98.0
X Ray Diffraction 1.9338 1.9822 -- 232 4428 0.1515 0.1681 -- 98.0
X Ray Diffraction 1.9822 2.0358 -- 235 4416 0.1515 0.1554 -- 98.0
X Ray Diffraction 2.0358 2.0957 -- 232 4415 0.1561 0.1752 -- 98.0
X Ray Diffraction 2.0957 2.1633 -- 235 4448 0.161 0.1934 -- 98.0
X Ray Diffraction 2.1633 2.2406 -- 238 4482 0.1581 0.1849 -- 98.0
X Ray Diffraction 2.2406 2.3303 -- 236 4425 0.1562 0.1665 -- 99.0
X Ray Diffraction 2.3303 2.4364 -- 235 4468 0.1462 0.163 -- 99.0
X Ray Diffraction 2.4364 2.5648 -- 238 4478 0.1532 0.1754 -- 99.0
X Ray Diffraction 2.5648 2.7255 -- 232 4506 0.1605 0.1737 -- 99.0
X Ray Diffraction 2.7255 2.9359 -- 244 4495 0.1527 0.1778 -- 99.0
X Ray Diffraction 2.9359 3.2313 -- 234 4502 0.1516 0.1786 -- 99.0
X Ray Diffraction 3.2313 3.6986 -- 234 4488 0.1475 0.1756 -- 100.0
X Ray Diffraction 3.6986 4.659 -- 240 4545 0.1376 0.1735 -- 100.0
X Ray Diffraction 4.659 43.425 -- 239 4544 0.1649 0.1708 -- 99.0
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.004
f_chiral_restr 0.075
f_dihedral_angle_d 11.24
f_angle_d 1.102
f_bond_d 0.007
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6128
Nucleic Acid Atoms 0
Heterogen Atoms 16
Solvent Atoms 1145

Software

Computing
Computing Package Purpose
XDS Data Reduction (intensity integration)
XSCALE Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (PHENIX.REFINE: 1.7.3_928) Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.10 data extraction
phenix refinement
Phaser version: 2.4.0 molecular replacement
Xscale data reduction