X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

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_mcbond_it 1.756
r_mcangle_other 2.939
r_gen_planes_other 0.001
r_long_range_B_other 5.464
r_angle_other_deg 0.772
r_dihedral_angle_3_deg 18.589
r_scbond_other 1.869
r_bond_other_d 0.001
r_gen_planes_refined 0.007
r_long_range_B_refined 5.466
r_mcangle_it 2.939
r_bond_refined_d 0.011
r_angle_refined_deg 1.481
r_chiral_restr 0.081
r_dihedral_angle_4_deg 19.709
r_scbond_it 1.87
r_dihedral_angle_2_deg 34.693
r_dihedral_angle_1_deg 6.868
r_mcbond_other 1.755
r_scangle_other 3.089
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

Software
Software Name Purpose
MxCuBE data collection
PHASER phasing
REFMAC refinement version: 5.7.0032
MOSFLM data reduction
SCALA data scaling