X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 8.5
Temperature 277.0
Details 1.3M ammonium sulfate, 0.25M lithium sulfate, 0.1M Tris-HCl, pH 8.5, vapor diffusion, sitting drop, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 91.28 α = 90
b = 91.28 β = 90
c = 172.52 γ = 120
Symmetry
Space Group P 32 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
AREA DETECTOR ADSC QUANTUM 4 -- 2008-11-24
Diffraction Radiation
Monochromator Protocol
-- single wavelength
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-2 0.933 ESRF ID14-2

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
1.85 79.06 100.0 0.07 0.07 -- 7.8 71849 71849 2.1 1.3 --
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)
1.85 1.95 100.0 0.563 0.563 1.3 5.5 --

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 1.85 40.34 -- 1.36 71743 71734 3629 99.97 -- 0.1677 0.1664 0.1924 --
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 1.85 1.8743 -- 143 2591 0.2428 0.2387 -- 100.0
X Ray Diffraction 1.8743 1.9 -- 139 2613 0.219 0.2366 -- 100.0
X Ray Diffraction 1.9 1.9272 -- 98 2587 0.208 0.2815 -- 100.0
X Ray Diffraction 1.9272 1.9559 -- 117 2597 0.1985 0.2205 -- 100.0
X Ray Diffraction 1.9559 1.9865 -- 139 2626 0.2038 0.2368 -- 100.0
X Ray Diffraction 1.9865 2.0191 -- 133 2590 0.195 0.2135 -- 100.0
X Ray Diffraction 2.0191 2.0539 -- 146 2568 0.1763 0.2056 -- 100.0
X Ray Diffraction 2.0539 2.0912 -- 128 2567 0.1745 0.2005 -- 100.0
X Ray Diffraction 2.0912 2.1314 -- 146 2593 0.1676 0.1997 -- 100.0
X Ray Diffraction 2.1314 2.1749 -- 143 2607 0.1661 0.2181 -- 100.0
X Ray Diffraction 2.1749 2.2222 -- 150 2599 0.1655 0.208 -- 100.0
X Ray Diffraction 2.2222 2.2739 -- 119 2608 0.162 0.2227 -- 100.0
X Ray Diffraction 2.2739 2.3308 -- 151 2576 0.1589 0.1898 -- 100.0
X Ray Diffraction 2.3308 2.3938 -- 161 2613 0.1568 0.1819 -- 100.0
X Ray Diffraction 2.3938 2.4642 -- 129 2621 0.1629 0.1917 -- 100.0
X Ray Diffraction 2.4642 2.5437 -- 138 2596 0.1721 0.2272 -- 100.0
X Ray Diffraction 2.5437 2.6346 -- 137 2593 0.1762 0.1935 -- 100.0
X Ray Diffraction 2.6346 2.7401 -- 160 2586 0.1765 0.2134 -- 100.0
X Ray Diffraction 2.7401 2.8648 -- 149 2630 0.1806 0.2084 -- 100.0
X Ray Diffraction 2.8648 3.0158 -- 141 2608 0.1821 0.2005 -- 100.0
X Ray Diffraction 3.0158 3.2047 -- 125 2654 0.1777 0.2071 -- 100.0
X Ray Diffraction 3.2047 3.452 -- 135 2662 0.1666 0.1974 -- 100.0
X Ray Diffraction 3.452 3.7991 -- 163 2628 0.1487 0.1758 -- 100.0
X Ray Diffraction 3.7991 4.3483 -- 162 2650 0.1321 0.163 -- 100.0
X Ray Diffraction 4.3483 5.4762 -- 143 2702 0.1237 0.1465 -- 100.0
X Ray Diffraction 5.4762 40.3497 -- 134 2840 0.2015 0.1933 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 28.8497
Anisotropic B[1][1] 0.34
Anisotropic B[1][2] 0.17
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.34
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.51
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.005
f_chiral_restr 0.081
f_dihedral_angle_d 13.036
f_angle_d 1.214
f_bond_d 0.011
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3675
Nucleic Acid Atoms 0
Heterogen Atoms 30
Solvent Atoms 395

Software

Computing
Computing Package Purpose
MOSFLM Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (phenix.refine: 1.8.1_1168) Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.11 data extraction
REFMAC5 refinement
Phaser molecular replacement
SCALA version: 3.2.25 data reduction
Mosflm data collection