X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.5
Temperature 297.0
Details 0.1M HEPES, 25% PEG3350, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 297K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 62.14 α = 90
b = 95.48 β = 109.66
c = 69.9 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 ADSC QUANTUM 315r -- 2012-07-03
Diffraction Radiation
Monochromator Protocol
SI(111) DOUBLE CRYSTAL SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-ID 0.97931 APS 19-ID

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
1.75 50 99.8 0.088 -- -- 7.1 79623 76983 -- -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)
1.75 1.78 97.8 0.623 -- 2.71 5.4 3773

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 1.75 31.13 -- -- 72717 72717 3848 99.01 0.13799 0.13799 0.13496 0.19568 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 1.75 1.796 5229 269 5052 0.175 0.286 -- 93.14
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 27.887
Anisotropic B[1][1] -1.25
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -1.44
Anisotropic B[2][2] 2.96
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.95
RMS Deviations
Key Refinement Restraint Deviation
r_chiral_restr 0.094
r_dihedral_angle_2_deg 36.705
r_sphericity_free 27.257
r_rigid_bond_restr 4.41
r_sphericity_bonded 16.303
r_gen_planes_other 0.002
r_bond_refined_d 0.013
r_angle_other_deg 0.839
r_bond_other_d 0.001
r_dihedral_angle_3_deg 13.467
r_dihedral_angle_4_deg 16.875
r_angle_refined_deg 1.548
r_gen_planes_refined 0.008
r_dihedral_angle_1_deg 11.39
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5382
Nucleic Acid Atoms 0
Heterogen Atoms 20
Solvent Atoms 546

Software

Software
Software Name Purpose
SBC data collection version: COLLECT
MLPHARE phasing
DM model building
SHELXDE phasing
RESOLVE model building
ARP/wARP model building
Coot model building
REFMAC refinement version: 5.7.0029
HKL-3000 data reduction
HKL-3000 data scaling
DM phasing
RESOLVE phasing