X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.5
Temperature 293.0
Details 13% PEG3350, 0.2M MgCl2, 0.1M Tris-HCl, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 157.69 α = 90
b = 157.69 β = 90
c = 158.78 γ = 90
Symmetry
Space Group I 41 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2012-03-08
Diffraction Radiation
Monochromator Protocol
Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON PHOTON FACTORY BEAMLINE BL-17A 0.98000 Photon Factory BL-17A

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
1.5 50 100.0 0.089 -- -- 14.7 157557 157557 -- -- --
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)
1.5 1.53 100.0 0.765 -- 4.99 14.6 7806

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 1.5 45.63 -- -- -- 149594 7908 99.88 -- 0.1227 0.1211 0.1518 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 1.501 1.54 -- 550 10413 0.154 0.21 -- 98.87
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 21.614
Anisotropic B[1][1] -0.09
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.09
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.19
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_1_deg 5.912
r_rigid_bond_restr 8.954
r_sphericity_free 29.759
r_sphericity_bonded 19.213
r_dihedral_angle_4_deg 19.295
r_gen_planes_refined 0.014
r_angle_refined_deg 2.177
r_bond_refined_d 0.026
r_dihedral_angle_2_deg 33.301
r_chiral_restr 0.17
r_dihedral_angle_3_deg 12.927
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5731
Nucleic Acid Atoms 0
Heterogen Atoms 55
Solvent Atoms 650

Software

Software
Software Name Purpose
ADSC data collection version: Quantum
SHELXCD phasing
SHELXE model building
REFMAC refinement version: 5.6.0117
HKL-2000 data reduction
HKL-2000 data scaling