Topography Prediction of Helical Transmembrane Proteins by a New Modification of the Sliding Window Method

Table 4

Prediction of TMD boundaries calculated upon processing of hydrophobicity functions 𝑓_𝑛(𝑘) at 𝑛=4,5 on 𝐻_𝑁(𝑖) (𝑁=3,4,5) scales for GPCRs.

Protein name, code, length	Scale level	Number and boundaries of hydrophobic regions, including TMDs
		1	2	3	4	5	6	7
A4D1U0_; HUMAN A4D1U0; 299 aa	𝐻5(𝑖),𝑛=5; ⟨𝑢⟩=0.439	7–28	45–70	82–102	127–147	173–194	222–240	253–274
	𝐻3(𝑖),𝑛=5; ⟨𝑢⟩=0.057	7–29	46–71	77–103	124–144	179–194	222–237	258–275
A5Z1T7_; HUMAN A5Z1T7; 300 aa	𝐻4(𝑖),𝑛=5; ⟨𝑢⟩=0.755	7–27	43–57	75–100	121–146	185–210	225–240	263–274
	𝐻3(𝑖),𝑛=5; ⟨𝑢⟩=−0.043	7–26	41–64	75–97	123–144	185–209	225–238	264–274
B5B0C2_; HUMAN B5B0C2; 337 aa	𝐻5(𝑖),𝑛=5; ⟨𝑢⟩=0.142	14–40	49–72	85–122	132–155	189–201	227–255	275–293
	𝐻3(𝑖),𝑛=5; ⟨𝑢⟩=−0.030	14–39	51–71	89–; 89–109	−154; 134–154	193–205	226–256	277–292
M9TID6_; 9BETA M9TID6; 347 aa	𝐻3(𝑖),𝑛=4; 𝑢=0.055	43–57	69–88	97–123	149–161	188–219	232–262	265–288
	𝐻5(𝑖),𝑛=5; ⟨𝑢⟩=0.191	33–56	66–87	100–123	148–164	186–217	233–; 233–253	−295; 275–295
Q76L88_; HUMAN Q76L88; 321 aa	𝐻5(𝑖),𝑛=5; ⟨𝑢⟩=0.201	11–40	54–78	93–116	156–178	196–223	251–270
	𝐻3(𝑖),𝑛=5; ⟨𝑢⟩=−0.050	13–37	55–78	90–117	153–174	198–225	248–282