X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 5.5
Temperature 293.0
Details PEG 400, potassium phosphate

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 92.19 α = 90
b = 97.47 β = 90
c = 139.25 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 Dynamically bendable mirror 2013-11-18
Diffraction Radiation
Monochromator Protocol
LN2 cooled fixed-exit Si(111) monochromator SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X06SA 1.000 SLS X06SA

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
1.72 79.85 100.0 0.08 -- -- 8.2 -- 133389 -- 0.0 --
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)
1.72 1.76 100.0 0.934 -- -- 8.4 --

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 1.72 48.736 -- -- -- 132391 998 99.98 -- 0.17993 0.17978 0.2004 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 1.72 1.765 -- 73 9683 0.279 0.299 -- 99.98
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 27.193
Anisotropic B[1][1] -0.53
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.51
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.98
RMS Deviations
Key Refinement Restraint Deviation
r_bond_other_d 0.003
r_gen_planes_other 0.003
r_scangle_other 1.95
r_long_range_B_other 6.377
r_bond_refined_d 0.01
r_scbond_other 1.224
r_mcbond_it 0.664
r_chiral_restr 0.079
r_long_range_B_refined 6.641
r_dihedral_angle_4_deg 17.925
r_dihedral_angle_3_deg 11.221
r_angle_refined_deg 1.395
r_mcangle_other 1.109
r_mcbond_other 0.661
r_angle_other_deg 1.182
r_dihedral_angle_1_deg 6.316
r_dihedral_angle_2_deg 36.805
r_gen_planes_refined 0.005
r_scbond_it 1.225
r_mcangle_it 1.109
Coordinate Error
Parameter Value
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 8870
Nucleic Acid Atoms 0
Heterogen Atoms 279
Solvent Atoms 839

Software

Software
Software Name Purpose
XDS data reduction
XSCALE data scaling
REFMAC refinement version: 5.8.0135
MOLREP phasing