Different chemical dynamics for different conformers of biological molecules: photoionization of glycine.
Single-photon ionization dynamics of two conformers of glycine is studied by classical trajectory simulations using the semiempirical PM3 potential surface in "on the fly" calculations. Initial conditions for the trajectories are weighted according to the Wigner distribution function computed for the initial vibrational ground state. Vertical ionization in the spirit of the classical Franck-Condon principle is assumed. The dynamics of the two conformers are compared during the first 10 ps. The comparison shows very different dynamical behavior for the two conformers. In particular, the chemical fragmentation pathways differ in part. Also, one of the conformers gives much higher rates of conformational transitions, while the other conformer gives larger chemical fragmentation yields. The example shows significantly different chemical dynamics for two conformers close in energy and separated by a low barrier.
Shemesh
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Department of Physical Chemistry, The Hebrew University, Jerusalem, Israel.
Gerber
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RB
D000577:Amides / Q000737:chemistry; D001704:Biopolymers / Q000737:chemistry*; D002244:Carbon / Q000737:chemistry; D002264:Carboxylic Acids / Q000737:chemistry; D005998:Glycine / Q000737:chemistry*; D006859:Hydrogen / Q000737:chemistry; D006860:Hydrogen Bonding; D008968:Molecular Conformation; D017785:Photons; D013816:Thermodynamics; D014867:Water / Q000737:chemistry
D000577:Amides; D001704:Biopolymers; D002264:Carboxylic Acids; D014867:Water; D002244:Carbon; D006859:Hydrogen; D005998:Glycine