My question is related to mapping into martini coarse grained model. I am having a problem doing this when multiple structures exist. For example, with alpha tocopherol I have faced this type of problem. How can one begin to tackle such a type of problem?
I am attaching a link of image also. Thanks in advance...
http://www.google.com/imgres?imgurl=http://www.lef.org/magazine/mag2006/images/apr2006_report_gamma_04_big.jpg&imgrefurl=http://www.lef.org/magazine/mag2006/apr2006_report_gamma_01.htm&h=159&w=318&sz=1&tbnid=fHsKBNNTWov-pM:&tbnh=75&tbnw=151&zoom=1&usg=__nUpPXFsn0rUsJ8tmxLd46mfjywI=&docid=0CggvCH_VMGEqM&itg=1&sa=X&ei=10qgUrifKoW3iQeamYHQDQ&ved=0CKABEPwdMAo