X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7
Temperature 293.0
Details 0.1 M HEPES pH 7.0 17% PEG3350 0.1 M ammonium sulfate

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 78.75 α = 90
b = 103.18 β = 90
c = 112.85 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 PILATUS 6M -- 2017-05-07
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL12-2 0.9794 SSRL BL12-2

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
2.1 46.92 99.2 0.093 -- -- 5.7 -- 53790 -- -- --
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)
2.1 2.16 99.7 0.572 -- -- 5.7 --

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 2.1 76.15 -- 0.0 -- 51099 2627 98.84 -- 0.2036 0.2013 0.2488 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 2.1 2.155 -- 179 3758 0.307 0.355 0.0 99.42
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 34.399
Anisotropic B[1][1] 0.25
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.42
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.67
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_1_deg 6.295
r_gen_planes_refined 0.01
r_dihedral_angle_2_deg 38.589
r_dihedral_angle_4_deg 17.574
r_angle_refined_deg 1.855
r_dihedral_angle_3_deg 14.99
r_chiral_restr 0.122
r_bond_refined_d 0.02
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6256
Nucleic Acid Atoms 0
Heterogen Atoms 8
Solvent Atoms 264

Software

Software
Software Name Purpose
REFMAC refinement
Aimless data scaling version: 0.5.17
PHASER phasing version: 2.6.0
PDB_EXTRACT data extraction version: 3.22
XDS data reduction