X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.2
Temperature 289.0
Details 10mg/ml protein sample in 20 mM Tris, pH 7.5, reservior solution - 50mM HEPES (pH 7.2), 100mM sodium acetate, 22% PEG3350, VAPOR DIFFUSION, SITTING DROP, temperature 289K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 118.6 α = 90
b = 94.14 β = 110.53
c = 62.72 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 90
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- 2013-05-09
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRF BEAMLINE BL17U 0.979 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
2.6 50 99.5 -- -- -- -- -- 20541 3.0 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)
2.6 50.0 -- -- -- -- -- --

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 2.574 35.906 -- 1.34 20371 20270 1045 98.68 0.278 0.2049 0.2008 0.278 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 2.5743 2.7099 -- 142 2668 0.3278 0.4385 -- 95.0
X Ray Diffraction 2.7099 2.8797 -- 150 2742 0.2563 0.3175 -- 100.0
X Ray Diffraction 2.8797 3.1019 -- 135 2774 0.2523 0.385 -- 100.0
X Ray Diffraction 3.1019 3.4138 -- 169 2718 0.2811 0.3888 -- 99.0
X Ray Diffraction 3.4138 3.9073 -- 148 2768 0.2087 0.2858 -- 99.0
X Ray Diffraction 3.9073 4.9208 -- 159 2784 0.151 0.2196 -- 100.0
X Ray Diffraction 4.9208 35.9098 -- 142 2771 0.1549 0.2052 -- 98.0
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 14.794
f_angle_d 1.25
f_plane_restr 0.006
f_chiral_restr 0.047
f_bond_d 0.01
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4247
Nucleic Acid Atoms 0
Heterogen Atoms 12
Solvent Atoms 30

Software

Software
Software Name Purpose
HKL-2000 data collection
CNS refinement
PHENIX refinement version: (phenix.refine: 1.8.4_1496)
DENZO data reduction
HKL-2000 data scaling
CNS phasing