X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Batch Mode
pH 6
Temperature 293.15
Details 0.1 M SPG, pH 6.0, 25 % w/v PEG 1500

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 36.86 α = 90
b = 50.76 β = 90
c = 67.12 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 298.15
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M-F -- 2016-03-03
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON DIAMOND BEAMLINE I04 0.920 Diamond I04

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
1.55 36.86 100.0 0.136 -- -- 12.2 -- 18957 -- -- 8.98
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)
1.55 1.59 100.0 0.562 -- -- 12.4 --

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 1.55 33.558 -- 1.35 -- 18909 937 99.99 -- 0.1948 0.1936 0.2185 --
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 1.55 1.6318 -- 127 2531 0.1736 0.2178 -- 100.0
X Ray Diffraction 1.6318 1.734 -- 138 2512 0.1761 0.1961 -- 100.0
X Ray Diffraction 1.734 1.8679 -- 125 2546 0.1964 0.2157 -- 100.0
X Ray Diffraction 1.8679 2.0558 -- 139 2526 0.1978 0.2263 -- 100.0
X Ray Diffraction 2.0558 2.3532 -- 128 2561 0.1923 0.2168 -- 100.0
X Ray Diffraction 2.3532 2.9645 -- 133 2592 0.2092 0.2418 -- 100.0
X Ray Diffraction 2.9645 33.566 -- 147 2704 0.1908 0.2092 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 11.0197
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.005
f_bond_d 0.005
f_chiral_restr 0.037
f_angle_d 0.619
f_dihedral_angle_d 17.554
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1062
Nucleic Acid Atoms 0
Heterogen Atoms 9
Solvent Atoms 90

Software

Software
Software Name Purpose
Aimless data scaling version: 0.5.21
PHENIX refinement version: 1.10.1_2155
PDB_EXTRACT data extraction version: 3.20
xia2 data reduction
PHASER phasing