X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 9.1
Temperature 291.0
Details 0.2 M Sodium phosphate dibasic dihydrate, 20% w/v Polyethylene glycol 3,350 , pH 9.1, VAPOR DIFFUSION, HANGING DROP, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 88.58 α = 90
b = 142 β = 90
c = 174.38 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 MARMOSAIC 225 mm CCD -- 2012-06-29
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 22-BM 1.0 APS 22-BM

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
1.99 35 99.8 0.112 -- -- 13.7 149904 149605 0.0 0.0 --
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 98.9 0.891 -- -- 9.1 --

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 1.992 22.257 -- 1.33 150484 149298 7485 99.31 -- 0.1721 0.1697 0.2183 --
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 1.9921 2.0147 -- 216 4048 0.2698 0.3448 -- 86.0
X Ray Diffraction 2.0147 2.0384 -- 248 4649 0.2533 0.3285 -- 99.0
X Ray Diffraction 2.0384 2.0632 -- 256 4678 0.2249 0.2895 -- 100.0
X Ray Diffraction 2.0632 2.0893 -- 254 4699 0.221 0.2967 -- 100.0
X Ray Diffraction 2.0893 2.1168 -- 245 4695 0.2087 0.2789 -- 100.0
X Ray Diffraction 2.1168 2.1458 -- 260 4700 0.1973 0.2786 -- 100.0
X Ray Diffraction 2.1458 2.1764 -- 259 4717 0.1922 0.2448 -- 100.0
X Ray Diffraction 2.1764 2.2089 -- 229 4725 0.1886 0.2484 -- 100.0
X Ray Diffraction 2.2089 2.2433 -- 234 4707 0.1848 0.2566 -- 100.0
X Ray Diffraction 2.2433 2.2801 -- 253 4754 0.186 0.2692 -- 100.0
X Ray Diffraction 2.2801 2.3194 -- 249 4712 0.1748 0.2465 -- 100.0
X Ray Diffraction 2.3194 2.3615 -- 253 4719 0.1725 0.2474 -- 100.0
X Ray Diffraction 2.3615 2.4069 -- 269 4694 0.1649 0.2424 -- 100.0
X Ray Diffraction 2.4069 2.4559 -- 268 4702 0.1649 0.2413 -- 100.0
X Ray Diffraction 2.4559 2.5093 -- 230 4762 0.1654 0.2245 -- 100.0
X Ray Diffraction 2.5093 2.5675 -- 253 4734 0.1598 0.2161 -- 100.0
X Ray Diffraction 2.5675 2.6317 -- 231 4753 0.1627 0.2342 -- 100.0
X Ray Diffraction 2.6317 2.7027 -- 274 4728 0.1613 0.2146 -- 100.0
X Ray Diffraction 2.7027 2.7821 -- 258 4742 0.1622 0.2321 -- 100.0
X Ray Diffraction 2.7821 2.8717 -- 237 4755 0.1659 0.2173 -- 100.0
X Ray Diffraction 2.8717 2.9741 -- 255 4742 0.1664 0.2093 -- 100.0
X Ray Diffraction 2.9741 3.0929 -- 261 4728 0.1769 0.256 -- 100.0
X Ray Diffraction 3.0929 3.2332 -- 265 4747 0.1699 0.223 -- 100.0
X Ray Diffraction 3.2332 3.4031 -- 234 4807 0.1724 0.211 -- 100.0
X Ray Diffraction 3.4031 3.6155 -- 256 4754 0.1757 0.2165 -- 100.0
X Ray Diffraction 3.6155 3.8933 -- 258 4769 0.1648 0.2029 -- 99.0
X Ray Diffraction 3.8933 4.2826 -- 268 4784 0.148 0.1908 -- 99.0
X Ray Diffraction 4.2826 4.8966 -- 245 4822 0.1282 0.1487 -- 99.0
X Ray Diffraction 4.8966 6.1475 -- 246 4884 0.1658 0.1985 -- 100.0
X Ray Diffraction 6.1475 22.2586 -- 221 5103 0.174 0.1814 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] -1.384
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -3.9388
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 5.3228
RMS Deviations
Key Refinement Restraint Deviation
f_angle_d 1.426
f_chiral_restr 0.133
f_plane_restr 0.006
f_bond_d 0.012
f_dihedral_angle_d 13.875
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 14684
Nucleic Acid Atoms 0
Heterogen Atoms 188
Solvent Atoms 1682

Software

Software
Software Name Purpose
SCALEPACK data scaling
REFMAC refinement version: 5.7.0029
PDB_EXTRACT data extraction version: 3.11
SERGUI data collection
HKL-2000 data reduction
PHENIX phasing
PHENIX refinement version: 1.7.3_928