X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7
Temperature 293.0
Details 20% PEG8000, 0.2M AMMONIUM SULPHATE, 0.1M IMIDAZOLE, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 54.44 α = 90
b = 54.44 β = 90
c = 109.13 γ = 120
Symmetry
Space Group P 31 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD RIGAKU SATURN 944+ -- --
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU 1.5418 -- --

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
1.6 30 95.9 0.058 -- -- 5.4 24403 24403 -- -- --
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)
1.6 1.66 98.2 0.246 -- 6.0 5.2 --

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 1.6 28.8 -- 1.48 24358 24358 2400 95.9 0.1467 0.1467 0.1453 0.1994 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 1.6001 1.6183 -- 785 785 0.157 0.157 -- 97.0
X Ray Diffraction 1.6183 1.6373 -- 847 847 0.1225 0.1225 -- 99.0
X Ray Diffraction 1.6373 1.6573 -- 821 821 0.1264 0.1264 -- 98.0
X Ray Diffraction 1.6573 1.6782 -- 797 797 0.1195 0.1195 -- 98.0
X Ray Diffraction 1.6782 1.7003 -- 830 830 0.1013 0.1013 -- 98.0
X Ray Diffraction 1.7003 1.7236 -- 790 790 0.0864 0.0864 -- 98.0
X Ray Diffraction 1.7236 1.7482 -- 821 821 0.0887 0.0887 -- 97.0
X Ray Diffraction 1.7482 1.7743 -- 804 804 0.0838 0.0838 -- 97.0
X Ray Diffraction 1.7743 1.802 -- 820 820 0.1026 0.1026 -- 96.0
X Ray Diffraction 1.802 1.8316 -- 794 794 0.0866 0.0866 -- 96.0
X Ray Diffraction 1.8316 1.8632 -- 789 789 0.0661 0.0661 -- 96.0
X Ray Diffraction 1.8632 1.897 -- 801 801 0.0896 0.0896 -- 95.0
X Ray Diffraction 1.897 1.9335 -- 805 805 0.1161 0.1161 -- 96.0
X Ray Diffraction 1.9335 1.973 -- 804 804 0.118 0.118 -- 96.0
X Ray Diffraction 1.973 2.0159 -- 799 799 0.092 0.092 -- 96.0
X Ray Diffraction 2.0159 2.0627 -- 806 806 0.1035 0.1035 -- 95.0
X Ray Diffraction 2.0627 2.1143 -- 771 771 0.105 0.105 -- 94.0
X Ray Diffraction 2.1143 2.1715 -- 796 796 0.1161 0.1161 -- 94.0
X Ray Diffraction 2.1715 2.2353 -- 785 785 0.134 0.134 -- 93.0
X Ray Diffraction 2.2353 2.3074 -- 787 787 0.1262 0.1262 -- 93.0
X Ray Diffraction 2.3074 2.3899 -- 799 799 0.1301 0.1301 -- 94.0
X Ray Diffraction 2.3899 2.4855 -- 787 787 0.1429 0.1429 -- 91.0
X Ray Diffraction 2.4855 2.5986 -- 772 772 0.1371 0.1371 -- 93.0
X Ray Diffraction 2.5986 2.7355 -- 787 787 0.1492 0.1492 -- 92.0
X Ray Diffraction 2.7355 2.9067 -- 813 813 0.1486 0.1486 -- 94.0
X Ray Diffraction 2.9067 3.1309 -- 816 816 0.1516 0.1516 -- 95.0
X Ray Diffraction 3.1309 3.4455 -- 835 835 0.14 0.14 -- 97.0
X Ray Diffraction 3.4455 3.943 -- 864 864 0.1262 0.1262 -- 98.0
X Ray Diffraction 3.943 4.9636 -- 890 890 0.1212 0.1212 -- 100.0
X Ray Diffraction 4.9636 28.8045 -- 943 943 0.169 0.169 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model PROTEIN ANISOTROPIC, SOLVENT ISOTROPIC
Anisotropic B[1][1] -0.2173
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.2173
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.4115
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.005
f_chiral_restr 0.076
f_angle_d 1.185
f_dihedral_angle_d 18.421
f_bond_d 0.008
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1636
Nucleic Acid Atoms 0
Heterogen Atoms 47
Solvent Atoms 351

Software

Software
Software Name Purpose
CrystalClear data collection
AMoRE phasing
PHENIX refinement version: (phenix.refine: 1.5_2)
d*TREK data reduction
SCALA data scaling