X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
Temperature 293.0
Details 16.0% polyethylene glycol 3350, 0.2M magnesium chloride, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 126.92 α = 90
b = 126.92 β = 90
c = 39.35 γ = 120
Symmetry
Space Group P 64

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M Flat mirror (vertical focusing); single crystal Si(111) bent monochromator (horizontal focusing) 2013-05-01
Diffraction Radiation
Monochromator Protocol
single crystal Si(111) bent MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL11-1 0.91837, 0.97864, 0.97817 SSRL BL11-1

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
1.7 25.22 99.8 -- 0.08 -- 6.2 40202 40202 -- -- --
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)
1.7 1.74 100.0 0.828 0.828 0.9 6.0 2954

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
MAD 1.7 25.217 -- 0.0 -- 40187 2012 99.8 -- 0.1662 0.1651 0.1873 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 1.7 1.744 -- 144 2780 0.271 0.328 -- 99.93
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 36.8299
Anisotropic B[1][1] 0.08
Anisotropic B[1][2] 0.08
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.08
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.27
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_2_deg 31.894
r_mcbond_other 4.15
r_gen_planes_refined 0.008
r_bond_refined_d 0.012
r_dihedral_angle_3_deg 13.565
r_chiral_restr 0.088
r_mcbond_it 4.151
r_dihedral_angle_1_deg 5.754
r_gen_planes_other 0.005
r_bond_other_d 0.005
r_angle_refined_deg 1.573
r_angle_other_deg 1.02
r_mcangle_it 6.637
r_dihedral_angle_4_deg 6.821
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1763
Nucleic Acid Atoms 0
Heterogen Atoms 53
Solvent Atoms 245

Software

Software
Software Name Purpose
MolProbity model building version: 3beta29
PDB_EXTRACT data extraction version: 3.10
SOLVE phasing
SCALA data scaling version: 3.3.20
REFMAC refinement
MOSFLM data reduction