. Author manuscript; available in PMC: 2008 Jul 31.

Published in final edited form as: Biochemistry. 2008 Mar 28;47(16):4614–4620. doi: 10.1021/bi702069d

Table 2.

Comparison of the Calculated Energies of Monkey Red Homology Models Containing 6-s-cis and 6-s-trans A1 Retinal Chromophores

	energy (Charmm) (kcal/mol)
models	6-s-cis	6-s-trans
monkey red (560 nm)^a	−7229.297	−7086.673
monkey red (560 nm)^b	−6908.607	−7127.620
monkey red (9-cis)^b	−10811.176	−10508.343

The model is based on the human red model that has been run with a 1 ns molecular dynamics. The structure was optimized by ABNR methods, and the energy was calculated (see the text).

The same as in ^a but after 2 ns molecular dynamics.