X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8
Temperature 293.0
Details 33% (v/v) pentaerythritol propoxylate PO/OH 5/4, 2 % (w/v) PEG 3350, and 100 mM Tris-HCl, pH 8.0

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 101.47 α = 90
b = 130.46 β = 90
c = 159.57 γ = 90
Symmetry
Space Group I 2 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M -- 2017-01-12
Diffraction Radiation
Monochromator Protocol
KMC-1 SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON BESSY BEAMLINE 14.1 0.918 BESSY 14.1

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
1.48 49.25 98.9 0.04 -- -- 5.2 -- 173724 -- -- --
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)
1.48 1.5 93.9 0.673 -- 1.9 5.2 --

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 1.48 49.25 -- -- -- 170339 3382 98.78 -- 0.15708 0.15678 0.17197 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 1.478 1.516 -- 239 12221 0.319 0.326 -- 96.5
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 38.483
Anisotropic B[1][1] 0.9
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -2.37
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.47
RMS Deviations
Key Refinement Restraint Deviation
r_bond_refined_d 0.013
r_mcangle_it 2.04
r_dihedral_angle_2_deg 35.459
r_scbond_it 2.13
r_dihedral_angle_4_deg 14.364
r_scangle_other 3.295
r_dihedral_angle_3_deg 13.779
r_chiral_restr 0.116
r_mcbond_it 1.389
r_long_range_B_other 4.435
r_dihedral_angle_1_deg 5.884
r_mcangle_other 2.041
r_long_range_B_refined 4.567
r_scbond_other 2.13
r_bond_other_d 0.002
r_angle_refined_deg 1.691
r_gen_planes_refined 0.009
r_angle_other_deg 1.714
r_gen_planes_other 0.002
r_mcbond_other 1.386
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5512
Nucleic Acid Atoms 0
Heterogen Atoms 258
Solvent Atoms 614

Software

Software
Software Name Purpose
REFMAC refinement version: 5.8.0158
Aimless data scaling
REFMAC phasing version: 5.8.0135
Coot model building version: 0.8.3
XDS data reduction