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The interplay of sequence and stereochemistry in defining conformation in proteins and polypeptides

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Title The interplay of sequence and stereochemistry in defining conformation in proteins and polypeptides
 
Creator RANBHOR, R
RAMAKRISHNAN, V
KUMAR, A
DURANI, S
 
Subject polyproline-ii helices
circular-dichroism
backbone conformation
molecular-dynamics
unfolded proteins
globular-proteins
gramicidin-a
amino-acids
preferences
peptides
protein folding
peptide conformation
peptide dipoles
electrostatic interactions
random coils
chain stereochemistry
 
Description Sequential specification of conformation in proteins and polypeptides is a triangular interplay involving the system of linked peptides, the sequences in side chains, and water as solvent. Stereochemistry in side chain linkages is obviously important in the interaction between all of the players, but no specification of its explicit role, if any, in linking sequence with conformation has been made. Flory and coworkers made a puzzling observation in 1967 that, when mutated from poly-L to alternating-L,L) stereochemical structure, polypeptides will suffer a reduction in overall dimension or characteristic ratio by at? astonishing factor of 10 and to a value even lower than that predicted for free rotation (Miller, W. G.; Brant, D. A.; Flory, P. J. J Mol Biol 1967, 23, 67-80). Enquiring into this longstanding puzzle, Durani and coworkers found that the stereochemical modification will also abolish conformational sensitivity in polypeptide structure to solvent, because electrostatic interactions in the system of linked peptides are transformed from a condition of mutual conflict to one of harmony (Ramakrishnan, V.; Ranbhor, R.; Kumar, A.; Durani, S. J Phys Chem B 2006, 110, 9314-9323). Thus, poly-L stereochemistry could be the fulcrum linking sequences with phi,psi s in protein and polypeptide structures, via dielectric arbitrations in a conflicting type of interpeptide electrostatics, in agreement with the electrostatic screening model of Avbelj and Moult (Avbelj, F.; Moult, J. Biochemistry 1995, 34, 755-764). (c) 2006 .
 
Publisher JOHN WILEY & SONS INC
 
Date 2011-08-16T16:10:45Z
2011-12-26T12:55:01Z
2011-12-27T05:43:33Z
2011-08-16T16:10:45Z
2011-12-26T12:55:01Z
2011-12-27T05:43:33Z
2006
 
Type Article
 
Identifier BIOPOLYMERS, 83(5), 537-545
0006-3525
http://dx.doi.org/10.1002/bip.20584
http://dspace.library.iitb.ac.in/xmlui/handle/10054/9549
http://hdl.handle.net/10054/9549
 
Language en