X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 5.6
Details 0.2 M AMMONIUM ACETATE, 0.1 M SODIUM CITRATE TRIBASIC DIHYDRATE, PH 5.6, 30% PEG 4000

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 106.58 α = 90
b = 70.36 β = 90
c = 45.24 γ = 90
Symmetry
Space Group P 21 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL (PILATUS 2M) DECTRIS -- --
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X06DA -- SLS X06DA

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
1.8 45.2 99.7 0.14 -- -- 12.7 -- 32208 -- 2.3 --
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)
1.8 1.9 99.7 -- -- 2.3 13.0 --

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 1.8 45.241 -- 1.35 -- 32208 1634 99.73 -- 0.1626 0.1603 0.2042 --
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 1.8004 1.8534 -- 134 2420 0.2342 0.3074 -- 97.0
X Ray Diffraction 1.8534 1.9132 -- 135 2500 0.2096 0.2634 -- 100.0
X Ray Diffraction 1.9132 1.9816 -- 134 2525 0.1929 0.2619 -- 100.0
X Ray Diffraction 1.9816 2.061 -- 123 2545 0.1723 0.2177 -- 100.0
X Ray Diffraction 2.061 2.1547 -- 136 2508 0.1678 0.2308 -- 100.0
X Ray Diffraction 2.1547 2.2683 -- 148 2524 0.1566 0.2138 -- 100.0
X Ray Diffraction 2.2683 2.4105 -- 121 2546 0.155 0.2185 -- 100.0
X Ray Diffraction 2.4105 2.5966 -- 117 2561 0.1637 0.2023 -- 100.0
X Ray Diffraction 2.5966 2.8578 -- 149 2533 0.1653 0.2152 -- 100.0
X Ray Diffraction 2.8578 3.2712 -- 147 2572 0.1623 0.1833 -- 100.0
X Ray Diffraction 3.2712 4.121 -- 142 2617 0.1357 0.1921 -- 100.0
X Ray Diffraction 4.121 45.2553 -- 148 2724 0.1502 0.1727 -- 100.0
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.004
f_chiral_restr 0.067
f_dihedral_angle_d 12.849
f_angle_d 1.07
f_bond_d 0.007
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3106
Nucleic Acid Atoms 0
Heterogen Atoms 20
Solvent Atoms 347

Software

Computing
Computing Package Purpose
XDS 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