X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6
Temperature 292.0
Details 0.1 M Lithium Sulfate, 0.1 M MES, 20% PEG mme 2000, 0.15 M Glycine, pH 6, VAPOR DIFFUSION, HANGING DROP, temperature 292K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 95.79 α = 90
b = 105.61 β = 90
c = 120.49 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 210 MICROBEAM 2011-11-21
Diffraction Radiation
Monochromator Protocol
SI (111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON CHESS BEAMLINE A1 -- CHESS A1

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
2.9 40 99.4 0.158 -- -- 10.3 -- 51697 -- -3.0 --
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)
2.9 2.95 99.4 -- -- -- 9.7 --

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
SAD, MOLECULAR REPLACEMENT 2.905 39.71 -- 1.34 51697 51603 3740 99.23 -- 0.2115 0.2078 0.2569 --
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 2.9051 2.9419 -- 126 1614 0.3733 0.3903 -- 91.0
X Ray Diffraction 2.9419 2.9806 -- 138 1724 0.3623 0.42 -- 98.0
X Ray Diffraction 2.9806 3.0214 -- 148 1767 0.3681 0.362 -- 98.0
X Ray Diffraction 3.0214 3.0645 -- 141 1749 0.3305 0.3845 -- 99.0
X Ray Diffraction 3.0645 3.1103 -- 135 1794 0.3147 0.3641 -- 99.0
X Ray Diffraction 3.1103 3.1589 -- 141 1773 0.3025 0.3879 -- 99.0
X Ray Diffraction 3.1589 3.2106 -- 130 1761 0.3082 0.3973 -- 99.0
X Ray Diffraction 3.2106 3.266 -- 138 1792 0.2929 0.4069 -- 99.0
X Ray Diffraction 3.266 3.3253 -- 135 1781 0.2895 0.3304 -- 100.0
X Ray Diffraction 3.3253 3.3892 -- 133 1782 0.2667 0.3475 -- 100.0
X Ray Diffraction 3.3892 3.4584 -- 139 1784 0.2453 0.2613 -- 100.0
X Ray Diffraction 3.4584 3.5335 -- 136 1779 0.2283 0.2875 -- 100.0
X Ray Diffraction 3.5335 3.6157 -- 136 1757 0.234 0.2836 -- 100.0
X Ray Diffraction 3.6157 3.706 -- 139 1797 0.2218 0.2473 -- 100.0
X Ray Diffraction 3.706 3.8062 -- 142 1791 0.1952 0.253 -- 100.0
X Ray Diffraction 3.8062 3.9181 -- 139 1788 0.1987 0.2477 -- 100.0
X Ray Diffraction 3.9181 4.0444 -- 139 1800 0.1984 0.1949 -- 100.0
X Ray Diffraction 4.0444 4.1888 -- 143 1789 0.1682 0.2892 -- 100.0
X Ray Diffraction 4.1888 4.3563 -- 139 1788 0.1683 0.2149 -- 100.0
X Ray Diffraction 4.3563 4.5543 -- 139 1782 0.1558 0.1956 -- 100.0
X Ray Diffraction 4.5543 4.7941 -- 144 1787 0.1608 0.2087 -- 100.0
X Ray Diffraction 4.7941 5.0938 -- 138 1772 0.1635 0.2146 -- 100.0
X Ray Diffraction 5.0938 5.4862 -- 139 1804 0.1635 0.1857 -- 100.0
X Ray Diffraction 5.4862 6.0366 -- 141 1758 0.1963 0.2337 -- 100.0
X Ray Diffraction 6.0366 6.9061 -- 145 1788 0.2071 0.2835 -- 100.0
X Ray Diffraction 6.9061 8.686 -- 138 1798 0.1505 0.1882 -- 100.0
X Ray Diffraction 8.686 39.7135 -- 139 1764 0.1549 0.197 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] -6.5516
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -5.5855
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 12.1371
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.002
f_chiral_restr 0.042
f_dihedral_angle_d 12.262
f_angle_d 0.635
f_bond_d 0.003
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 7062
Nucleic Acid Atoms 0
Heterogen Atoms 42
Solvent Atoms 31

Software

Computing
Computing Package Purpose
HKL-2000 Data Reduction (intensity integration)
HKL Data Reduction (data scaling)
SOLVE ; PHASER Structure Solution
PHENIX (phenix.refine: dev_989) Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.10 data extraction
phenix refinement
SOLVE phasing
Phaser version: 2.4.0 molecular replacement
HKL data reduction