X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7
Details 4-7% PEG 6000, 50 MM HEPES PH 7.0, 200 MM AMMONIUM ACETATE, 300MM SODIUM ACETATE, 5 MM TCEP, VAPOR DIFFUSION, HANGING DROP.

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 221.64 α = 90
b = 391.52 β = 90
c = 281.77 γ = 90
Symmetry
Space Group C 2 2 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL (PSI PILATUS 6M) DECTRIS -- 2008-02-08
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X06SA -- SLS X06SA

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
3.4 54 100.0 0.12 -- -- 7.0 -- 167266 -- 2.0 103.48
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)
3.4 3.58 100.0 0.79 -- 2.3 6.6 --

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 3.4 54.093 -- 0.0 -- 167169 3298 99.96 -- 0.1656 0.1649 0.1989 --
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 3.4 3.4486 -- 130 6808 0.2987 0.3173 -- 100.0
X Ray Diffraction 3.4486 3.5 -- 137 6746 0.2577 0.2506 -- 100.0
X Ray Diffraction 3.5 3.5547 -- 146 6764 0.2455 0.263 -- 100.0
X Ray Diffraction 3.5547 3.613 -- 135 6783 0.2404 0.2724 -- 100.0
X Ray Diffraction 3.613 3.6753 -- 131 6799 0.2333 0.2427 -- 100.0
X Ray Diffraction 3.6753 3.7421 -- 145 6756 0.225 0.2602 -- 100.0
X Ray Diffraction 3.7421 3.814 -- 115 6817 0.2097 0.2564 -- 100.0
X Ray Diffraction 3.814 3.8919 -- 111 6814 0.1977 0.2227 -- 100.0
X Ray Diffraction 3.8919 3.9765 -- 130 6762 0.1824 0.2409 -- 100.0
X Ray Diffraction 3.9765 4.0689 -- 160 6777 0.1782 0.2314 -- 100.0
X Ray Diffraction 4.0689 4.1707 -- 131 6830 0.1661 0.2254 -- 100.0
X Ray Diffraction 4.1707 4.2834 -- 141 6768 0.1514 0.1928 -- 100.0
X Ray Diffraction 4.2834 4.4094 -- 119 6832 0.1378 0.1663 -- 100.0
X Ray Diffraction 4.4094 4.5516 -- 139 6796 0.1211 0.165 -- 100.0
X Ray Diffraction 4.5516 4.7142 -- 168 6779 0.1149 0.1537 -- 100.0
X Ray Diffraction 4.7142 4.9028 -- 157 6800 0.117 0.1539 -- 100.0
X Ray Diffraction 4.9028 5.1258 -- 139 6845 0.1315 0.192 -- 100.0
X Ray Diffraction 5.1258 5.3958 -- 137 6799 0.1532 0.1836 -- 100.0
X Ray Diffraction 5.3958 5.7335 -- 151 6862 0.1556 0.2149 -- 100.0
X Ray Diffraction 5.7335 6.1757 -- 124 6884 0.1667 0.1999 -- 100.0
X Ray Diffraction 6.1757 6.7961 -- 159 6859 0.1658 0.1815 -- 100.0
X Ray Diffraction 6.7961 7.777 -- 140 6901 0.145 0.1883 -- 100.0
X Ray Diffraction 7.777 9.7887 -- 143 6958 0.1295 0.1666 -- 100.0
X Ray Diffraction 9.7887 54.0999 -- 110 7132 0.1825 0.1954 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 117.4
Anisotropic B[1][1] -6.1881
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -21.0263
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 27.2144
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.006
f_chiral_restr 0.095
f_dihedral_angle_d 19.765
f_angle_d 1.498
f_bond_d 0.011
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 31167
Nucleic Acid Atoms 929
Heterogen Atoms 9
Solvent Atoms 0

Software

Computing
Computing Package Purpose
MOSFLM 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