X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6
Temperature 298.0
Details 3.5 M ammonium sulfate pH adjusted with ammonium hydroxide; 0.25% deoxycholate in the drop, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 32.4 α = 90
b = 32.4 β = 90
c = 178.4 γ = 90
Symmetry
Space Group P 43 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 210r -- 2003-04-13
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-BM 1.03320 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
1.95 90 91.4 0.072 -- -- 5.8 -- 7061 -- -3.0 --
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)
1.95 2.02 61.9 0.102 -- 7.1 2.5 459

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 1.95 30.0 -- -- -- 6269 672 90.72 -- 0.18978 0.18513 0.23281 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 1.951 2.001 -- 31 297 0.166 0.268 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 17.87
Anisotropic B[1][1] 0.43
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.43
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.86
RMS Deviations
Key Refinement Restraint Deviation
r_nbd_refined 0.385
r_nbtor_other 0.084
r_symmetry_hbond_refined 0.214
r_chiral_restr 0.083
r_nbd_other 0.249
r_angle_refined_deg 1.565
r_dihedral_angle_1_deg 5.577
r_metal_ion_refined 0.031
r_bond_other_d 0.002
r_gen_planes_other 0.006
r_mcbond_it 0.884
r_symmetry_vdw_other 0.235
r_scangle_it 3.571
r_mcangle_it 1.686
r_scbond_it 2.4
r_xyhbond_nbd_refined 0.188
r_angle_other_deg 0.899
r_gen_planes_refined 0.008
r_symmetry_vdw_refined 0.218
r_bond_refined_d 0.016
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 532
Nucleic Acid Atoms 0
Heterogen Atoms 172
Solvent Atoms 70

Software

Software
Software Name Purpose
REFMAC refinement version: 5.1.24
CNS refinement
HKL-2000 data collection
HKL-2000 data reduction
HKL-2000 data scaling
CNS phasing