X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8
Temperature 292.0
Details 28% (w/v) polyethylene glycol 1500, 0.3 M ammonium fluoride and 10% DMSO, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 292K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 50.77 α = 90
b = 118.47 β = 90.09
c = 111.12 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 MARMOSAIC 225 mm CCD -- 2012-03-05
Diffraction Radiation
Monochromator Protocol
Si(111) double-crystal SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON LNLS BEAMLINE W01B-MX2 1.46 LNLS W01B-MX2

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 40 90.9 0.069 -- -- 3.9 155841 80586 1.0 2.0 --
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)
1.997 2.07 99.9 0.251 -- -- 4.0 --

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 1.997 40.0 -- -- 80586 76225 4013 90.08 0.2014 0.19599 0.19358 0.24207 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 1.997 2.048 -- 325 5798 0.214 0.305 -- 92.87
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 24.694
Anisotropic B[1][1] 0.2
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.84
Anisotropic B[2][2] -0.86
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.66
RMS Deviations
Key Refinement Restraint Deviation
r_angle_refined_deg 1.645
r_dihedral_angle_2_deg 38.279
r_bond_refined_d 0.014
r_dihedral_angle_1_deg 6.609
r_chiral_restr 0.112
r_dihedral_angle_4_deg 19.25
r_gen_planes_refined 0.008
r_dihedral_angle_3_deg 15.378
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 11832
Nucleic Acid Atoms 0
Heterogen Atoms 140
Solvent Atoms 409

Software

Software
Software Name Purpose
NatXray data collection
MOLREP phasing
REFMAC refinement version: 5.6.0117
DENZO data reduction
SCALEPACK data scaling