PolySacDb

A Database of Polysachharide 3D structures

 
By A. Sarkar & S. Pérez
 
 
 

Polysaccharides For Experts

Agarose (single)

 

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Diffraction Diagram

 

Fig.1 X-ray diffraction patterns from WHT film of agarose.

(a)Oriented under second type of stretching procedure between 80 and 100°C. Patterns show high degree of orientation and crystallization with a layer line spacing of 3.552 nm and a clearly defined meridional on the fourth layer line at spacing 0.888 nm.

     

Fig.2 X-ray diffraction patterns from DMAA high-temperature (DHT) film.

(a)Oriented using type 2 stretching procedure at 42-53°C. Substantially improved crystallinity showing layer lines at spacing 2.919 nm with a meridional on the third layer line at spacing 0.973 nm.

(b)Similar to (b) but with slightly different layer line spacing of 2.815 nm and changes in the intensity of various reflections, especially on equator.

(c)Oriented using type 2 stretching procedure at 80-100°C. Pattern is highly crystalline, with layer line spacing 3.552 nm and meridional on fourth layer line. Similar to Fig. (A).

*Permission Pending for Diffraction Diagrams

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Structures are best viewed using PyMol & Sybyl

(Please download the structure and view in a stand-alone viewer if the structure appears distorted in Jmol)

 

  Agarose (single)

Linkage :       alpha 1-4      alpha 1-3

 

Space Group :       P21

 

Unit Cell Dimensions (a, b, c in Å and α, β, γ in °)

(No values are displayed if no information is available or the value is zero)

 

 

Helix Type :      

extended and single agarose chains

 

Method(s) Used For Structure Determination :      

X-ray diffraction

 

Link to the Abstract :      
 
http://onlinelibrary.wiley.com/doi/10.1002/bip.360280802/abstract

 

Reference :      

New x-ray diffraction results from agarose: Extended single helix structures and implications for gelation mechanism
Foord, S.A. and Atkins, E.D.T., 1989, Biopolymers, 28, 1345-1365

 

 

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