X-RAY DIFFRACTION Experimental Data & Validation


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Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 5.6
Temperature 295.0
Details 0.1M Tris-sodium citrate buffer, 0.2M ammonium acetate, 33% polyethylene glycol 4k, pH 5.6, VAPOR DIFFUSION, SITTING DROP, temperature 295K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 42.13 α = 90
b = 101.77 β = 102.6
c = 46.32 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M mirrors 2012-11-14
Diffraction Radiation
Monochromator Protocol
channel cut cryogenically cooled monochromator crystal SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SOLEIL BEAMLINE PROXIMA 1 0.9791 SOLEIL PROXIMA 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
1.66 38.12 99.5 0.04 -- -- 3.7 44718 44718 0.0 -3.0 23.2
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)
1.66 1.76 98.1 0.189 -- 6.9 3.5 7126

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 1.66 38.12 -- -- 44718 42482 2236 99.54 0.178 0.17661 0.17487 0.20935 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 1.66 1.703 -- 158 3011 0.27 0.3 -- 96.53
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 17.328
Anisotropic B[1][1] -0.95
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.41
Anisotropic B[2][2] -1.07
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.75
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_refined 0.013
r_chiral_restr 0.17
r_dihedral_angle_4_deg 21.742
r_dihedral_angle_3_deg 12.135
r_dihedral_angle_2_deg 33.099
r_dihedral_angle_1_deg 5.842
r_angle_refined_deg 2.342
r_bond_refined_d 0.024
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2727
Nucleic Acid Atoms 68
Heterogen Atoms 49
Solvent Atoms 296

Software

Computing
Computing Package Purpose
MX Cube Data Collection
XDS Data Reduction (intensity integration)
XSCALE Data Reduction (data scaling)
PHASER Structure Solution
REFMAC 5.7.0032 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.7.0032 refinement
PHASER model building
MX version: Cube data collection