X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 4.5
Temperature 277.0
Details RESERVOIR SOLUTION : NULL

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 56.65 α = 90
b = 56.65 β = 90
c = 104.08 γ = 120
Symmetry
Space Group P 61 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M -- 2013-02-10
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X06SA 1.00003 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
1.73 49.06 100.0 0.043 -- -- 22.9 -- 10925 -- 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)
1.73 1.98 100.0 0.428 -- -- 23.3 --

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 1.73 49.06 -- 0.0 -- 9857 1065 99.99 -- 0.2445 0.2415 0.2733 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 1.73 1.775 -- 91 700 0.349 0.377 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 17.91
Anisotropic B[1][1] -1.03
Anisotropic B[1][2] -0.51
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.03
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.54
RMS Deviations
Key Refinement Restraint Deviation
r_mcbond_other 0.455
r_scangle_it 5.236
r_dihedral_angle_4_deg 5.208
r_bond_other_d 0.002
r_dihedral_angle_1_deg 5.677
r_gen_planes_refined 0.004
r_dihedral_angle_3_deg 13.992
r_mcbond_it 1.819
r_scbond_it 3.589
r_chiral_restr 0.061
r_dihedral_angle_2_deg 42.274
r_mcangle_it 2.547
r_bond_refined_d 0.01
r_gen_planes_other 0.001
r_angle_other_deg 1.028
r_angle_refined_deg 1.245
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 765
Nucleic Acid Atoms 0
Heterogen Atoms 33
Solvent Atoms 32

Software

Software
Software Name Purpose
REFMAC refinement version: 5.5.0109
PDB_EXTRACT data extraction version: 3.20
XDS data reduction
XSCALE data scaling
REFMAC phasing