X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.5
Temperature 292.0
Details 200mM KCl, TRIS, PEG4000

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 35.11 α = 90
b = 35.11 β = 90
c = 69.11 γ = 120
Symmetry
Space Group P 31 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M -- 2013-02-11
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON PETRA III, EMBL c/o DESY BEAMLINE P13 (MX1) 0.968681 PETRA III, EMBL c/o DESY P13 (MX1)

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
1.14 30.41 98.4 -- 0.051 -- 9.8 -- 18549 -- -- 16.135
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)
1.14 1.21 90.3 0.89 -- 2.0 7.4 --

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 1.14 30.41 -- -- -- 17374 1109 99.14 -- 0.12361 0.12171 0.15296 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 1.14 1.17 -- 73 1142 0.277 0.292 -- 89.21
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 14.248
Anisotropic B[1][1] -0.4
Anisotropic B[1][2] -0.2
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.4
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.31
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_refined 0.025
r_scbond_other 1.894
r_scbond_it 1.896
r_scangle_other 2.061
r_sphericity_free 23.588
r_long_range_B_other 2.5
r_chiral_restr 0.115
r_angle_refined_deg 2.587
r_gen_planes_other 0.012
r_rigid_bond_restr 6.6
r_angle_other_deg 1.818
r_long_range_B_refined 3.796
r_bond_refined_d 0.025
r_bond_other_d 0.003
r_sphericity_bonded 12.697
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 0
Nucleic Acid Atoms 166
Heterogen Atoms 160
Solvent Atoms 114

Software

Software
Software Name Purpose
REFMAC refinement version: 5.8.0124
XDS data reduction
XDS data scaling
REFMAC phasing