X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Hanging Drop Vapor Diffusion
pH 6.5
Temperature 293.0
Details 0.1 M MES, 0.8 M sodium acetate, 0.1 M NaCl, 20% (w/v) ethylene glycol, pH 6.5, hanging-drop vapor diffusion, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 116.63 α = 90
b = 46.91 β = 102.17
c = 57.62 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r monochromator 2012-03-14
Diffraction Radiation
Monochromator Protocol
SAGITALLY FOCUSED Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
synchrotron APS BEAMLINE 19-ID 1.49993 APS 19-ID

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
1.9 50 99.4 0.046 -- -- 6.0 24023 24023 1.0 1.0 --
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)
1.9 1.93 98.6 0.232 -- -- 5.9 --

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
FOURIER SYNTHESIS 1.9012 29.529 -- 0.0 24011 24011 1187 99.31 -- 0.1608 0.1585 0.2034 --
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 1.9012 1.9877 -- 141 2762 0.1529 0.2165 -- 98.0
X Ray Diffraction 1.9877 2.0925 -- 148 2813 0.1481 0.2174 -- 99.0
X Ray Diffraction 2.0925 2.2235 -- 153 2834 0.1487 0.2073 -- 99.0
X Ray Diffraction 2.2235 2.3951 -- 154 2853 0.1478 0.2129 -- 99.0
X Ray Diffraction 2.3951 2.636 -- 151 2839 0.1587 0.2048 -- 100.0
X Ray Diffraction 2.636 3.0171 -- 144 2867 0.1635 0.211 -- 100.0
X Ray Diffraction 3.0171 3.8 -- 141 2893 0.1677 0.1967 -- 100.0
X Ray Diffraction 3.8 29.5324 -- 155 2963 0.1589 0.1945 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 33.4143
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.007
f_chiral_restr 0.082
f_dihedral_angle_d 12.386
f_angle_d 1.268
f_bond_d 0.015
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2521
Nucleic Acid Atoms 0
Heterogen Atoms 25
Solvent Atoms 159

Software

Computing
Computing Package Purpose
HKL-3000 Data Collection
HKL Data Reduction (intensity integration)
HKL-3000 Data Reduction (data scaling)
PHENIX Structure Solution
PHENIX (phenix.refine: 1.8.1_1168) Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.11 data extraction
phenix refinement
SCALEPACK data reduction