X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Details 0.1M BICINE PH 9.0, 10% MPD

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 127.25 α = 90
b = 127.25 β = 90
c = 59.06 γ = 120
Symmetry
Space Group P 31

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
2.96 63.6 99.3 0.06 -- -- 3.7 -- 22113 -- 2.0 73.06
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)
2.96 3.04 99.9 0.57 -- 2.0 3.8 --

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 2.962 63.625 -- 1.98 -- 22113 1133 99.34 -- 0.2425 0.2396 0.2943 --
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 2.9617 3.0965 -- 144 2649 0.3033 0.3936 -- 100.0
X Ray Diffraction 3.0965 3.2598 -- 129 2674 0.2715 0.3615 -- 100.0
X Ray Diffraction 3.2598 3.464 -- 144 2612 0.2515 0.3205 -- 100.0
X Ray Diffraction 3.464 3.7314 -- 127 2638 0.2394 0.3299 -- 99.0
X Ray Diffraction 3.7314 4.1069 -- 150 2600 0.2384 0.3099 -- 99.0
X Ray Diffraction 4.1069 4.701 -- 143 2588 0.2197 0.2584 -- 98.0
X Ray Diffraction 4.701 5.9221 -- 138 2631 0.2214 0.2602 -- 100.0
X Ray Diffraction 5.9221 63.6397 -- 158 2588 0.2461 0.2829 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 73.1
Anisotropic B[1][1] -5.712
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -5.712
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 11.4241
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.005
f_chiral_restr 0.094
f_dihedral_angle_d 16.141
f_angle_d 1.381
f_bond_d 0.009
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4851
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 2

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