X-RAY DIFFRACTION Experimental Data & Validation


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Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 283.0
Details 300mM sodium chloride, 50mM sodium cacodylate pH 6.5, 30% v/v MPD, VAPOR DIFFUSION, HANGING DROP, temperature 283K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 61.35 α = 90
b = 61.35 β = 90
c = 43.63 γ = 120
Symmetry
Space Group P 64 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 210 MONOCHROMATOR 2007-10-07
Diffraction Radiation
Monochromator Protocol
Si 111 CHANNEL SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-1 0.9785 ESRF ID14-1

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
1.97 22.69 98.9 0.056 -- -- 10.0 3739 3697 -- 0.0 33.0
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)
1.97 2.04 100.0 0.134 -- 10.8 10.8 359

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 2.2 10.0 -- 0.0 2520 2520 123 98.8 0.25664 0.25664 0.25436 0.30275 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 2.2 2.255 178 5 178 0.324 0.567 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Overall
Mean Isotropic B 21.26
Anisotropic B[1][1] 1.39
Anisotropic B[1][2] 0.7
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.39
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -2.09
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 3.389
r_scbond_it 1.92
r_nbd_refined 0.394
r_gen_planes_refined 0.019
r_chiral_restr 0.138
r_angle_refined_deg 3.306
r_bond_refined_d 0.019
r_nbtor_refined 0.353
r_xyhbond_nbd_refined 0.318
r_metal_ion_refined 0.232
r_symmetry_vdw_refined 0.397
r_symmetry_hbond_refined 0.179
r_symmetry_metal_ion_refined 0.101
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 0
Nucleic Acid Atoms 219
Heterogen Atoms 130
Solvent Atoms 28

Software

Computing
Computing Package Purpose
ADSC Quantum Data Collection
d*TREK Data Reduction (intensity integration)
d*TREK Data Reduction (data scaling)
PHASER Structure Solution
REFMAC 5.1.24 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.2.0019 refinement