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Fig. 3 | BMC Biology

Fig. 3

From: Charged residues next to transmembrane regions revisited: “Positive-inside rule” is complemented by the “negative inside depletion/outside enrichment rule”

Fig. 3

Negative-outside bias is very subtle in TMHs from multi-pass proteins. The meaning for the horizontal axis is the same as in Fig. 2, with the negative sequence position numbers extending towards the cytoplasmic space. Leucine is in blue. Arginine and lysine are shown in dark and light orange respectively. Aspartic and glutamic acid are shown in dark and light purple respectively. All flank sizes were set at up to ±20 residues. (a and b) On the vertical axes are the absolute abundances of residues from TMHs of multi-pass proteins from (a) UniHuman and (b) ExpAll. (c and d) On the vertical axes are the relative percentages at each position for TMHs from multi-pass proteins from (c) UniHuman and (d) ExpAll. As in Fig. 2c and d, the dashed lines show the estimation of the background level of residues with respect to the colour, and the thick bars show the averages on the inner and outer flanks coloured to the respective amino acid type. (e and f) The relative distribution of flanks defined by the databases with the distance from the TMH boundary on the horizontal axis for both the inside and outside flanks. The colouring is the same as in (a and b)

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