X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
Temperature 277.0
Details 0.1 M Li2SO4, 0.7 - 0.8 M Na-K tartrate, 0.1 M CHES

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 65.72 α = 90
b = 65.72 β = 90
c = 151.72 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 -- 2015-03-19
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X10SA 1.76995 SLS X10SA

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
2.3 37.8 98.3 0.115 -- -- 14.1 -- 17269 -- -3.0 62.054
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)
2.3 2.36 88.8 1.481 -- 1.07 7.1 --

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 2.3 37.8 -- 0.0 -- 16405 864 98.33 -- 0.2344 0.2329 0.2599 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 2.3 2.359 -- 56 1071 0.542 0.416 -- 88.67
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 89.694
Anisotropic B[1][1] 3.06
Anisotropic B[1][2] 1.53
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 3.06
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -9.94
RMS Deviations
Key Refinement Restraint Deviation
r_mcbond_it 7.151
r_dihedral_angle_4_deg 14.935
r_dihedral_angle_1_deg 6.34
r_dihedral_angle_3_deg 15.838
r_bond_refined_d 0.013
r_angle_other_deg 0.994
r_gen_planes_other 0.002
r_bond_other_d 0.002
r_mcbond_other 7.14
r_gen_planes_refined 0.008
r_chiral_restr 0.084
r_mcangle_it 10.457
r_angle_refined_deg 1.552
r_dihedral_angle_2_deg 35.253
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2341
Nucleic Acid Atoms 0
Heterogen Atoms 41
Solvent Atoms 22

Software

Software
Software Name Purpose
REFMAC refinement version: 5.8.0103
XDS data reduction
XSCALE data scaling
PHASER phasing
PDB_EXTRACT data extraction version: 3.20