X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 293.0
Details 0.8M sodium citrate, 10mM DTT, 0.1M BisTris, 10% glycerol, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 78.56 α = 90
b = 89.49 β = 90
c = 99.9 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 ADSC QUANTUM 315r -- 2009-07-23
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX1 0.953693 AUSTRALIAN SYNCHROTRON MX1

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
2.1 43.6 76.8 -- -- -- -- -- 41865 1.0 1.0 --

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 2.1 42.151 4.3 0.0 -- 40755 2056 97.49 -- 0.1777 0.1765 0.1996 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 2.1 2.1489 -- 134 2460 0.2069 0.2457 -- 95.0
X Ray Diffraction 2.1489 2.2026 -- 120 2496 0.1994 0.2461 -- 95.0
X Ray Diffraction 2.2026 2.2621 -- 132 2415 0.2241 0.2499 -- 93.0
X Ray Diffraction 2.2621 2.3287 -- 114 2447 0.1886 0.2501 -- 93.0
X Ray Diffraction 2.3287 2.4039 -- 145 2516 0.1698 0.2229 -- 97.0
X Ray Diffraction 2.4039 2.4898 -- 133 2569 0.162 0.1974 -- 98.0
X Ray Diffraction 2.4898 2.5894 -- 135 2584 0.1676 0.1942 -- 98.0
X Ray Diffraction 2.5894 2.7073 -- 137 2585 0.1686 0.2007 -- 98.0
X Ray Diffraction 2.7073 2.85 -- 153 2534 0.1652 0.1755 -- 98.0
X Ray Diffraction 2.85 3.0285 -- 121 2649 0.1662 0.1956 -- 99.0
X Ray Diffraction 3.0285 3.2622 -- 145 2616 0.1718 0.2053 -- 99.0
X Ray Diffraction 3.2622 3.5904 -- 138 2661 0.1703 0.1954 -- 100.0
X Ray Diffraction 3.5904 4.1095 -- 152 2657 0.1608 0.1866 -- 100.0
X Ray Diffraction 4.1095 5.1761 -- 151 2691 0.1663 0.1693 -- 100.0
X Ray Diffraction 5.1761 42.1599 -- 146 2819 0.2041 0.2038 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 28.8024
Anisotropic B[1][1] -0.3893
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.0938
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.483
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 13.436
f_plane_restr 0.004
f_chiral_restr 0.055
f_angle_d 0.789
f_bond_d 0.004
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3451
Nucleic Acid Atoms 0
Heterogen Atoms 14
Solvent Atoms 276

Software

Computing
Computing Package Purpose
Blu-Ice Data Collection
XDS Data Reduction (intensity integration)
XSCALE Data Reduction (data scaling)
PHENIX (phenix.refine: 1.7_650) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.7_650) refinement
Blu-Ice data collection