X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Details 0.1M HEPES PH 7.5, 0.5M AMMONIUM SULFATE, 30% V/V MPD

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 129.16 α = 90
b = 129.16 β = 90
c = 60.03 γ = 120
Symmetry
Space Group P 61

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 77
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 2M -- 2011-07-02
Diffraction Radiation
Monochromator Protocol
SINGLE BOUNCE SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON DIAMOND BEAMLINE I04-1 -- Diamond I04-1

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
1.73 56 100.0 0.13 -- -- 2.0 -- 54637 -- 2.0 14.12
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)
1.73 1.77 100.0 0.66 -- 2.7 6.3 --

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 1.782 55.928 -- 1.35 -- 54637 2774 99.96 -- 0.163 0.1621 0.1799 --
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 1.7824 1.8131 -- 154 2567 0.212 0.2289 -- 100.0
X Ray Diffraction 1.8131 1.8461 -- 149 2556 0.2037 0.2451 -- 100.0
X Ray Diffraction 1.8461 1.8816 -- 136 2579 0.1937 0.2243 -- 100.0
X Ray Diffraction 1.8816 1.92 -- 135 2593 0.1788 0.2009 -- 100.0
X Ray Diffraction 1.92 1.9618 -- 140 2581 0.1684 0.195 -- 100.0
X Ray Diffraction 1.9618 2.0074 -- 134 2575 0.1626 0.1766 -- 100.0
X Ray Diffraction 2.0074 2.0576 -- 150 2563 0.1597 0.1857 -- 100.0
X Ray Diffraction 2.0576 2.1133 -- 138 2575 0.1613 0.1966 -- 100.0
X Ray Diffraction 2.1133 2.1754 -- 122 2600 0.1621 0.1975 -- 100.0
X Ray Diffraction 2.1754 2.2457 -- 141 2558 0.1595 0.1841 -- 100.0
X Ray Diffraction 2.2457 2.3259 -- 133 2618 0.164 0.1962 -- 100.0
X Ray Diffraction 2.3259 2.4191 -- 133 2598 0.1582 0.2025 -- 100.0
X Ray Diffraction 2.4191 2.5292 -- 143 2575 0.1687 0.1799 -- 100.0
X Ray Diffraction 2.5292 2.6625 -- 129 2586 0.173 0.1998 -- 100.0
X Ray Diffraction 2.6625 2.8293 -- 134 2604 0.1681 0.171 -- 100.0
X Ray Diffraction 2.8293 3.0477 -- 143 2606 0.1662 0.1897 -- 100.0
X Ray Diffraction 3.0477 3.3544 -- 141 2610 0.163 0.1912 -- 100.0
X Ray Diffraction 3.3544 3.8397 -- 131 2616 0.1431 0.165 -- 100.0
X Ray Diffraction 3.8397 4.8372 -- 147 2616 0.1284 0.1164 -- 100.0
X Ray Diffraction 4.8372 55.9554 -- 141 2687 0.1746 0.1756 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 14.1
Anisotropic B[1][1] 0.4738
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.4738
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.9476
RMS Deviations
Key Refinement Restraint Deviation
f_bond_d 0.007
f_chiral_restr 0.09
f_plane_restr 0.006
f_angle_d 1.206
f_dihedral_angle_d 12.817
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2478
Nucleic Acid Atoms 0
Heterogen Atoms 15
Solvent Atoms 231

Software

Software
Software Name Purpose
PHENIX refinement version: (PHENIX.REFINE)
xia2 data reduction
SCALA data scaling
PHASER phasing