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 sodium cacodylate, 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 = 117.59 α = 90
b = 47.28 β = 102.04
c = 57.59 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 315 monochromator 2011-08-12
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 0.97929 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
1.83 50 99.7 0.076 -- -- 4.0 27231 27231 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)
1.83 1.86 99.9 0.574 -- -- 3.9 --

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
MOLECULAR REPLACEMENT 1.8334 28.75 -- 0.0 27219 27219 1364 99.41 -- 0.1717 0.1693 0.2171 --
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 1.8334 1.8989 -- 129 2446 0.2159 0.2635 -- 96.0
X Ray Diffraction 1.8989 1.9749 -- 121 2630 0.2035 0.2469 -- 99.0
X Ray Diffraction 1.9749 2.0648 -- 147 2558 0.1816 0.2358 -- 100.0
X Ray Diffraction 2.0648 2.1736 -- 146 2555 0.1722 0.2296 -- 100.0
X Ray Diffraction 2.1736 2.3097 -- 111 2616 0.1652 0.2208 -- 100.0
X Ray Diffraction 2.3097 2.488 -- 143 2603 0.1626 0.2125 -- 100.0
X Ray Diffraction 2.488 2.7382 -- 129 2583 0.1698 0.2284 -- 100.0
X Ray Diffraction 2.7382 3.134 -- 142 2591 0.1782 0.2482 -- 100.0
X Ray Diffraction 3.134 3.9469 -- 153 2606 0.1641 0.214 -- 100.0
X Ray Diffraction 3.9469 28.7537 -- 143 2667 0.1553 0.1803 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 31.6911
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.007
f_chiral_restr 0.081
f_dihedral_angle_d 12.354
f_angle_d 1.277
f_bond_d 0.018
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2521
Nucleic Acid Atoms 0
Heterogen Atoms 1
Solvent Atoms 169

Software

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