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 (PILATUS 2M) DECTRIS -- 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_plane_restr 0.006
f_chiral_restr 0.09
f_dihedral_angle_d 12.817
f_angle_d 1.206
f_bond_d 0.007
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

Computing
Computing Package Purpose
XIA2 Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (PHENIX.REFINE) Structure Refinement
Software
Software Name Purpose
PHENIX version: (PHENIX.REFINE) refinement
PHASER model building