X-RAY DIFFRACTION Experimental Data & Validation


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Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6.5
Temperature 293.0
Details 1 4 mg/mL ARF1DBD + 1 l crystallization buffer (100 mM MES 6.5, 20%PEG 5K MME) 7.7.11), VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 73.26 α = 90
b = 83.67 β = 117.61
c = 79.03 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
CCD ADSC QUANTUM 315r -- 2011-07-15
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-4 0.9393 ESRF ID14-4

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
2.67 70.02 96.6 0.098 -- -- 3.8 -- 23332 -- -3.0 73.1
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)
2.67 2.81 96.2 0.65 -- 2.2 3.7 3391

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 2.67 35.94 -- -- -- 22140 1173 96.1 -- 0.21885 0.21561 0.27945 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 2.667 2.736 -- 86 1598 0.32 0.407 -- 94.61
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 69.443
Anisotropic B[1][1] -0.52
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 1.32
Anisotropic B[2][2] -2.85
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.73
RMS Deviations
Key Refinement Restraint Deviation
r_long_range_B_other 5.464
r_long_range_B_refined 5.466
r_scangle_other 3.089
r_scbond_other 1.869
r_scbond_it 1.87
r_mcangle_other 2.939
r_mcangle_it 2.939
r_mcbond_other 1.755
r_mcbond_it 1.756
r_gen_planes_other 0.001
r_gen_planes_refined 0.007
r_chiral_restr 0.081
r_dihedral_angle_4_deg 19.709
r_dihedral_angle_3_deg 18.589
r_dihedral_angle_2_deg 34.693
r_dihedral_angle_1_deg 6.868
r_angle_other_deg 0.772
r_angle_refined_deg 1.481
r_bond_other_d 0.001
r_bond_refined_d 0.011
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5104
Nucleic Acid Atoms 0
Heterogen Atoms 2
Solvent Atoms 54

Software

Computing
Computing Package Purpose
MXCube Data Collection
MOSFLM Data Reduction (intensity integration)
SCALA 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
MXCube data collection