X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.8
Temperature 293.0
Details 0.75 l of 4mg/mL ARF1DBD + 0.75 l crystallization buffer (2.9 M NaFormate, 0.1 M MES 6.0, 50 mM KI), pH 7.8, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 88.36 α = 90
b = 126.26 β = 90
c = 83.67 γ = 90
Symmetry
Space Group C 2 2 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2011-06-08
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-4 0.97625 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
1.45 39.08 98.9 0.093 -- -- 3.2 -- 81768 -- -3.0 18.4
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)
1.45 1.53 99.9 0.58 -- 1.4 2.7 11957

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 1.45 39.08 -- -- -- 77670 4079 97.15 -- 0.21101 0.2093 0.24344 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 1.448 1.486 -- 279 5486 0.376 0.411 -- 94.73
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 18.723
Anisotropic B[1][1] 0.25
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.61
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.36
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_refined 0.009
r_mcangle_it 2.394
r_angle_refined_deg 1.565
r_dihedral_angle_4_deg 17.244
r_dihedral_angle_3_deg 13.354
r_bond_refined_d 0.014
r_dihedral_angle_1_deg 6.054
r_mcbond_it 1.413
r_chiral_restr 0.11
r_dihedral_angle_2_deg 38.299
r_scbond_it 1.716
r_long_range_B_refined 6.954
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2591
Nucleic Acid Atoms 0
Heterogen Atoms 23
Solvent Atoms 298

Software

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