TABLE 1.
Residue | ΔGbinding (kcal/mol)b | Hydrogen bond partner | Residue | ΔGbinding (kcal/mol)b | Hydrogen bond partner |
---|---|---|---|---|---|
Ser115 | −0.3 ± 0.3 | Glu414 | 0.7 ± 0.4 | Sialic acid | |
Leu117 | −0.4 ± 0.5 | Gly416 | −0.1 ± 0.1 | ||
Trp194 | −1.0 ± 0.4 | Trp417 | −0.5 ± 0.4 | ||
Asn239 | −0.8 ± 0.2 | Sialic acid | Phe418 | −1.2 ± 0.6 | |
Tyr241 | −0.6 ± 0.3 | Trp458 | −0.3 ± 0.3 | ||
Val242 | −1.3 ± 0.5 | Glu465 | 0.4 ± 0.3 | ||
His246 | −1.4 ± 0.2 | His467 | −1.9 ± 1.1 | Galactose | |
Leu253 | −0.6 ± 0.4 | Arg468 | −2.9 ± 1.1 | Glucose, sialic acid | |
Ser299 | −0.1 ± 0.5 | Sialic acid | Arg474 | −1.6 ± 0.7 | Sialic Acid |
Gly372 | −0.5 ± 0.3 | Total | −18.1 ± 2.0 | ||
Pro373 | −0.5 ± 0.2 | ||||
Thr374 | −0.2 ± 0.5 | Glucose* | −7.3 ± 1.4* | Arg468* | |
Leu375 | −0.7 ± 0.6 | Galactose* | −3.7 ± 0.6* | His467* | |
Phe377 | −1.4 ± 0.9 | Sialic acid* | −13.9 ± 1.6 | Asn239*, Ser299*, Glu414*, Arg468*, Arg474* | |
Leu379 | −0.6 ± 0.8 | Total* | −25.0 ± 2.8* |
The binding energy contribution of the interface residues between αKL1 and α2-3-sialyllactose; hydrogen bonds are reported if present in at least 2 simulations for ≥50% of the analyzed trajectory. The interface residues are defined as those that had a mean heavy-heavy atom distance of <5 Å in at least 3 of the 4 simulations.
The binding free energy was decomposed in 2 ways. One is per amino acid residue, which gives rise to a total ΔGbinding = −18.1 ± 2.0 kcal/mol. The other (*) is per sugar unit, which gives rise to a total ΔGbinding = −25 ± 2.8 kcal/mol. Note that the 2 totals are not identical because the electrostatic salvation energies cannot be equally divided between the receptor and ligand and only the interface residues within 5 Å were included in the first calculation (some long-range electrostatic interactions were not included). Arg468 makes [3H] bonds with α2-3-sialyllactose (2 with sialic acid, 1 with glucose), and contributes to the largest single residue binding energy (−2.9 ± 1.1 kcal/mol). Mutation of this residue disrupts sKlotho regulation of TRPC6 (9).