X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 293.0
Details 0.2M Sodium Chloride, 0.1M BISTIS PH6.5, 25% PEG 3350, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 93.83 α = 90
b = 93.83 β = 90
c = 172.86 γ = 120
Symmetry
Space Group P 61 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 325 mm CCD -- 2011-06-06
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRF BEAMLINE BL17U 0.9793 SSRF BL17U

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
2.4 50 100.0 0.103 -- -- 13.9 18332 18332 -- 2.0 38.68

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 2.4 41.234 -- 1.33 18248 18248 929 99.83 -- 0.1916 0.1895 0.2321 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 2.4004 2.5269 -- 131 2388 0.205 0.2754 -- 100.0
X Ray Diffraction 2.5269 2.6852 -- 152 2388 0.1977 0.2371 -- 100.0
X Ray Diffraction 2.6852 2.8925 -- 121 2441 0.1951 0.2763 -- 100.0
X Ray Diffraction 2.8925 3.1835 -- 133 2437 0.191 0.25 -- 100.0
X Ray Diffraction 3.1835 3.6439 -- 130 2476 0.1833 0.2281 -- 100.0
X Ray Diffraction 3.6439 4.5899 -- 143 2491 0.1738 0.2096 -- 100.0
X Ray Diffraction 4.5899 41.2402 -- 119 2698 0.199 0.2263 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 59.7121
Anisotropic B[1][1] 6.7753
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 6.7753
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -13.5506
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.003
f_chiral_restr 0.056
f_dihedral_angle_d 17.369
f_angle_d 0.712
f_bond_d 0.004
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2577
Nucleic Acid Atoms 0
Heterogen Atoms 63
Solvent Atoms 84

Software

Computing
Computing Package Purpose
HKL-2000 Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
PHASES Structure Solution
PHENIX (phenix.refine: 1.7.1_743) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.7.1_743) refinement
PHASES model building
HKL-2000 data collection