X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 8.5
Temperature 277.0
Details 0.2M trimethylamine N-oxide, 0.1 M tris-HCl, 20% (w/v) PEG monomethyl ether 2K 25% (v/V) ethylene glycol

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 54.86 α = 90
b = 74.88 β = 90
c = 98.56 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS3 6M -- 2017-07-13
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL9-2 0.97946 SSRL BL9-2

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
1.95 35 99.5 0.056 -- -- 5.2 -- 30237 -- -- --
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)
1.95 2.01 97.5 0.661 -- -- 4.6 --

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 1.95 32.95 -- 0.0 -- 28701 1484 99.45 -- 0.1826 0.1804 0.2265 RANDOM
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 1.949 2.0 -- 85 2053 0.31 0.314 0.0 97.01
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 42.882
Anisotropic B[1][1] 3.15
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -2.48
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.66
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_4_deg 22.153
r_gen_planes_refined 0.007
r_angle_refined_deg 1.428
r_dihedral_angle_1_deg 6.499
r_dihedral_angle_2_deg 34.815
r_angle_other_deg 1.415
r_bond_other_d 0.003
r_dihedral_angle_3_deg 15.413
r_bond_refined_d 0.008
r_chiral_restr 0.067
r_gen_planes_other 0.001
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2872
Nucleic Acid Atoms 0
Heterogen Atoms 36
Solvent Atoms 214

Software

Software
Software Name Purpose
REFMAC refinement version: 5.8.0232
HKL-2000 data scaling
PDB_EXTRACT data extraction version: 3.24
HKL-2000 data reduction
PHASER phasing