Table 4

Summary of TM helices for which LIPS failed to correctly predict the lipid-exposed surfaces. Rationalization of the failure is listed for some helices.

Protein

Helix

Rationalization

1IWG

TM2

(N/C)* LIPS offers a second best choice of lipid-exposed helical face

TM8

Regular helical structure is broken around A889 and A890. LIPS offers a second best choice

1KQF

TM1

Cardiolipin binding

1M3X

TM11

Cardiolipin binding

1OCR

TM18

(N/C) LIPS offers a second best choice

1PV6

TM4

Regular helical structure is broken around N119 by P123

1PW4

TM12

(N/C) LIPS offers a second best choice

1Q90

TM2

Heme interaction

* N/C: Not clear.

Adamian and Liang BMC Structural Biology 2006 6:13   doi:10.1186/1472-6807-6-13