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 and 0.3 M ammonium fluoride, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 292K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 57.35 α = 90
b = 68.66 β = 90
c = 85.19 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 225 mm CCD -- 2011-10-10
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
1.27 30 98.3 0.047 -- -- 4.9 105031 87922 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)
1.269 1.32 99.9 0.522 -- -- 4.6 --

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 1.269 22.48 -- -- 87922 83454 4409 98.3 -- 0.14718 0.14592 0.17084 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 1.269 1.302 -- 352 6096 0.186 0.235 -- 98.76
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 14.677
Anisotropic B[1][1] -1.29
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.25
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.54
RMS Deviations
Key Refinement Restraint Deviation
r_angle_refined_deg 1.161
r_dihedral_angle_4_deg 16.442
r_sphericity_bonded 6.726
r_dihedral_angle_3_deg 11.613
r_gen_planes_refined 0.005
r_bond_refined_d 0.005
r_dihedral_angle_2_deg 36.749
r_sphericity_free 11.695
r_rigid_bond_restr 1.784
r_chiral_restr 0.079
r_dihedral_angle_1_deg 5.879
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2965
Nucleic Acid Atoms 0
Heterogen Atoms 70
Solvent Atoms 363

Software

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