Homology modeling of major intrinsic proteins in rice, maize and Arabidopsis: comparative analysis of transmembrane helix association and aromatic/arginine selectivity filters

Table 6 Percentage sequence identities between plant MIP subfamilies and the three template sequences

Template^a	PIPs	TIPs	NIPs	SIPs
	Rice
AQP1	38.2–44.8	31.4–40.2	25.9–34.7	23.4–25.7
GlpF	31.0–35.4	29.2–36.3	25.5–38.5	22.0–29.4
AqpZ	27.2–35.5	30.1–38.3	28.6–39.9	26.7–29.1
	Maize
AQP1	40.1–46.0	30.0–37.9	29.0–32.2	25.2–26.1
GlpF	31.6–34.5	29.7–33.8	32.3–35.5	22.9–26.5
AqpZ	27.8–36.2	30.8–38.1	33.2–40.4	24.3–26.0
	*Arabidopsis*
AQP1	40.9–45.3	29.6–40.4	26.6–33.2	24.2–26.8
GlpF	29.2–35.3	26.9–33.2	32.3–39.3	24.8–29.6
AqpZ	29.4–34.4	27.2–38.5	32.6–39.2	22.4–24.0

^a Amino acid sequences corresponding to AQP1 (bovine), GlpF (E. coli) and AqpZ (E. coli) were used for this analysis. The corresponding PDB codes of these proteins are 1J4N, 1FX8 and 1RC2 and they served as template structures for the plant MIP modeling.

ISSN: 1472-6807