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Figure 6 | BMC Structural Biology

Figure 6

From: A new in-silico method for determination of helical transmembrane domains based on the PepLook scan: application to IL-2Rβ and IL-2Rγc receptor chains

Figure 6

Determination of the potential TMD center of IL-2Rβ and IL-2Rγ in the membrane. According to the statistical results from the PepLook scan run for the IL-2Rβ (4) and the IL-2Rγ (5), (A) the average percentage of helical structure in all the structures obtained with a window of 19 a.a. is shown for the different species as follows: Homo sapiens (blue), Bos taurus (purple), Mus musculus (dark purple), and Rattus norvegicus (dark red). The amino acid on the × axis represents the center of the considered scan-peptides, according to the species considered. The inter-species mean is shown in red and the acceptable TMD limits are represented by a dashed line at 75%. (B) The average ASArs are shown for the 4 species with a window of 5 amino acids; the inter-species mean is shown in blue. (C) We show the average depth of the penetration of the 19 a.a. long peptides, with a window of 3, in the membrane from 10 to -10 Å for the 4 species, and the inter-species mean (orange). (D) The means of each parameter are shown in the same graph, and the deducible TMD center is indicated by a dashed arrow. (*) Blue stars show the single variations described for Homo sapiens.

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