X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8
Temperature 298.0
Details 20% PEG MME 550, 0.1M HEPES pH 8.0, 0.05 M magnesium chloride, 10 mM dithiothreitol, vapor diffusion, hanging drop, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 58.47 α = 90
b = 75.07 β = 90
c = 131.82 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 ADSC QUANTUM 315 -- 2009-03-29
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 24-ID-C 0.9717 APS 24-ID-C

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 60 97.7 0.067 -- -- 4.9 38976 38976 -- -3.0 47.3
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)
2.0 2.07 99.6 0.35 -- 3.9 4.9 3906

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
FOURIER SYNTHESIS 2.0 49.51 -- 0.0 38902 38902 1964 97.34 0.178 0.178 0.176 0.209 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 2.0 2.052 -- 140 2574 0.231 0.251 -- 94.14
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 32.487
Anisotropic B[1][1] 0.3
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.47
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.18
RMS Deviations
Key Refinement Restraint Deviation
r_angle_other_deg 0.864
r_scbond_it 2.036
r_mcbond_it 1.73
r_mcangle_it 2.648
r_bond_other_d 0.001
r_bond_refined_d 0.008
r_dihedral_angle_4_deg 12.689
r_mcbond_other 0.483
r_dihedral_angle_2_deg 33.108
r_dihedral_angle_3_deg 13.746
r_scangle_it 3.025
r_chiral_restr 0.069
r_gen_planes_refined 0.005
r_angle_refined_deg 1.193
r_dihedral_angle_1_deg 5.679
r_gen_planes_other 0.001
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3322
Nucleic Acid Atoms 0
Heterogen Atoms 31
Solvent Atoms 179

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
REFMAC refinement
PDB_EXTRACT data extraction version: 3.005
ADSC data collection version: Quantum