X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8
Temperature 298.0
Details see publication, pH 8, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 52.9 α = 86.64
b = 59.06 β = 74.64
c = 93.76 γ = 63.43
Symmetry
Space Group P 1

Diffraction

Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL11-1 0.9764 SSRL BL11-1

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
2.3 20 91.42 -- -- -- -- 39541 39541 0.0 0.0 --

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 2.303 20.0 -- 1.96 -- 39460 1975 91.42 -- 0.207 0.2048 0.2491 --
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 2.3026 2.3601 -- 106 1827 0.2889 0.3517 -- 63.0
X Ray Diffraction 2.3601 2.4238 -- 118 2290 0.2954 0.3385 -- 78.0
X Ray Diffraction 2.4238 2.495 -- 105 2476 0.2745 0.2882 -- 84.0
X Ray Diffraction 2.495 2.5754 -- 165 2601 0.2553 0.3025 -- 89.0
X Ray Diffraction 2.5754 2.6672 -- 141 2665 0.2367 0.2896 -- 92.0
X Ray Diffraction 2.6672 2.7737 -- 150 2742 0.2456 0.269 -- 94.0
X Ray Diffraction 2.7737 2.8996 -- 147 2792 0.2271 0.2718 -- 95.0
X Ray Diffraction 2.8996 3.052 -- 130 2851 0.2245 0.2847 -- 97.0
X Ray Diffraction 3.052 3.2425 -- 169 2854 0.2151 0.2736 -- 98.0
X Ray Diffraction 3.2425 3.4916 -- 149 2912 0.1984 0.2497 -- 98.0
X Ray Diffraction 3.4916 3.8407 -- 146 2864 0.1744 0.2161 -- 98.0
X Ray Diffraction 3.8407 4.3914 -- 135 2920 0.1653 0.1948 -- 99.0
X Ray Diffraction 4.3914 5.5135 -- 164 2896 0.1715 0.1996 -- 99.0
X Ray Diffraction 5.5135 20.0378 -- 150 2795 0.2112 0.2574 -- 95.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 5.9713
Anisotropic B[1][2] -2.9478
Anisotropic B[1][3] -1.2047
Anisotropic B[2][2] -15.025
Anisotropic B[2][3] 4.1596
Anisotropic B[3][3] 9.0536
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.002
f_dihedral_angle_d 13.704
f_chiral_restr 0.043
f_angle_d 0.67
f_bond_d 0.002
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6961
Nucleic Acid Atoms 0
Heterogen Atoms 192
Solvent Atoms 217

Software

Software
Software Name Purpose
HKL-2000 data collection
PHENIX model building
PHENIX refinement version: (phenix.refine)
HKL-2000 data reduction
HKL-2000 data scaling
PHENIX phasing