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The effect of conformation on the CD of interacting helices: A theoretical study of tropomyosin
Author(s) -
Cooper Thomas M.,
Woody Robert W.
Publication year - 1990
Publication title -
biopolymers
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.556
H-Index - 125
eISSN - 1097-0282
pISSN - 0006-3525
DOI - 10.1002/bip.360300703
Subject(s) - chemistry , superhelix , steric effects , dihedral angle , crystallography , side chain , excited state , helix (gastropod) , chromophore , stereochemistry , hydrogen bond , molecule , dna supercoil , atomic physics , photochemistry , physics , dna , ecology , biochemistry , dna replication , organic chemistry , snail , biology , polymer
A recent report [M. E. Holtzer, et al. (1988) Biophysics Journal , 53 , 96a] of the anomalous CD spectum of the tropomyosin (TM) fragment 11TM127 motivated us to model the system as two 21‐residue α‐helices distorted to a coiled‐coil conformation. We used strong‐coupling exciton theory to model the optical properties of the system. Two backbone amide excited states ( n π* and ππ*) were considered, as well as four excited states (L b , L a , B b , B a ) for the phenolic side chain. We calculated the effect of superhelix formation on the backbone CD spectrum. The decrease in molar ellipticity of the α‐helix parallel‐polarized transition at 208 nm was found to be a simple function of superhelix tilt angle. We then modeled a coiled coil (radius = 5.5 Å, pitch = −140 Å) with one aromatic ring per superhelix. Steric interactions between aromatic side chains in a coiled coil were calculated as a function of side‐chain conformation and heptet position. Steric interactions between phenolic rings will be significant for heptet positions a and d, but not for positions b, c, e, f, or g. We calculated the phenolic L b transition rotational strength as a function of position within the heptet repeats, and of all possible side‐chain dihedral angles, X 1 and X 2 . When tyrosines were placed at heptet positions b, c, e, f, or g, the rotational‐strength surface was nearly identical to that of a single tyrosine in an undistorted helix. In contrast, the rotational‐strength surface for tyrosines in heptet positions a or d showed substantial intertyrosine coupling components. The rotational‐strength surfaces for the three types of heptet positions (position a, position d, and the others) allowed an interpretation of the aromatic CD spectra of TM and its fragments. It was predicted that the three types of heptet positions will be spectroscopically distinguishable.