X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 8.5
Temperature 297.0
Details 0.16 M magnesium chloride, 0.08 M Tris HCl pH 8.5, 24% PEG 4000, 20% Glycerol, VAPOR DIFFUSION, SITTING DROP, temperature 297K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 65.3 α = 90
b = 68.56 β = 90
c = 106.57 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 110
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 210r -- 2009-04-13
Diffraction Radiation
Monochromator Protocol
Double-crystal monochromator Si-111 SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-BM 0.97934 APS 19-BM

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
2.1 50 99.9 0.05 0.05 -- 8.7 28404 28404 0.0 -5.0 --
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)
2.1 2.12 100.0 0.564 0.564 4.2 8.6 --

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
SAD 2.1 31.54 -- -- 28404 26861 1438 99.39 -- 0.18438 0.18246 0.21941 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 2.103 2.158 -- 102 1845 0.215 0.303 -- 94.33
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 21.077
Anisotropic B[1][1] -0.23
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.01
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.23
RMS Deviations
Key Refinement Restraint Deviation
r_mcangle_it 1.152
r_dihedral_angle_1_deg 5.652
r_scbond_it 2.214
r_mcbond_it 0.611
r_dihedral_angle_2_deg 35.881
r_dihedral_angle_3_deg 14.404
r_scangle_it 3.626
r_chiral_restr 0.085
r_bond_refined_d 0.013
r_dihedral_angle_4_deg 15.134
r_gen_planes_refined 0.005
r_angle_refined_deg 1.267
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3061
Nucleic Acid Atoms 0
Heterogen Atoms 23
Solvent Atoms 171

Software

Software
Software Name Purpose
HKL-3000 data collection
SHELXD phasing
REFMAC refinement version: 5.5.0102
HKL-3000 data reduction
HKL-3000 data scaling