X-RAY DIFFRACTION Experimental Data & Validation


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Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6.5
Temperature 289.0
Details Morpheus A3: 0.06M magnesium chloride, 0.06M calcium chloride, 0.1M imidazole/MES pH 6.50, 30% glycerol/PEG-4000, VAPOR DIFFUSION, SITTING DROP, temperature 289K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 84.48 α = 90
b = 84.48 β = 90
c = 143.16 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
CCD MARMOSAIC 225 mm CCD -- 2013-04-03
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 21-ID-G 0.97856 APS 21-ID-G

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
1.85 50 97.9 0.027 -- -- -- 51201 50126 -- -3.0 36.296
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)
1.85 1.9 93.8 0.55 -- 3.87 -- --

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 1.85 42.28 -- 0.0 51201 50126 2541 97.93 -- 0.1615 0.1597 0.1959 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 1.85 1.898 -- 192 3306 0.363 0.386 -- 93.83
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 35.407
Anisotropic B[1][1] 0.29
Anisotropic B[1][2] 0.29
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.29
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.93
RMS Deviations
Key Refinement Restraint Deviation
r_mcangle_it 2.143
r_mcbond_other 1.517
r_bond_refined_d 0.019
r_bond_other_d 0.001
r_angle_refined_deg 1.835
r_angle_other_deg 0.908
r_dihedral_angle_1_deg 5.942
r_dihedral_angle_2_deg 33.712
r_dihedral_angle_3_deg 12.066
r_dihedral_angle_4_deg 12.647
r_chiral_restr 0.116
r_gen_planes_refined 0.01
r_gen_planes_other 0.001
r_mcbond_it 1.518
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3606
Nucleic Acid Atoms 0
Heterogen Atoms 9
Solvent Atoms 393

Software

Computing
Computing Package Purpose
XSCALE Data Reduction (data scaling)
PHASER Structure Solution
REFMAC 5.7.0032 Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.11 data extraction
REFMAC5 version: 5.7.0032 refinement
Phaser molecular replacement
Xscale data reduction