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. 2010 May 6;6(5):e1000775. doi: 10.1371/journal.pcbi.1000775

Table 1. Energetics and structural parameters for the lowest-energy conformers of bradykinin protomers.

N-ter Inline graphic Inline graphic C-ter Inline graphic Inline graphic Inline graphicPA Inline graphicGB IR SB sHB iHB HB
Inline graphic = 0
0 + 0 0 380 409 368 2 1 2 5 1
0 0 + 10 380 409 368 2 1 2 4 3
+ 0 0 49 542 535 540 2 1 1 5 0
0 0 0 0 57 0 0 0 0 0 0 0 4
Inline graphic = 1+
0 + + 0 380 409 368 3 2 3 2 0
0 + 0 0 46 0 0 0 1 0 0 3 4
0 0 + 0 63 0 0 0 1 0 0 4 1
+ 0 + 67 542 535 540 3 2 2 2 3
+ + 0 112 542 535 540 3 1 2 4 0
+ 0 0 0 152 162 126 172 1 0 0 3 3
Inline graphic = 2+
+ + + 0 542 535 540 4 3 4 3 1
0 + + 0 77 0 0 0 2 0 0 6 1
+ + 0 0 85 162 126 172 2 0 0 5 1
+ 0 + 0 93 162 126 172 2 0 0 5 2

In each row the following information is reported: protonation pattern (first column); energy difference with respect to the most stable protomer (Inline graphic in kJ/mol); (intrinsic) internal energy variation (Inline graphic), proton affinity (Inline graphicPA) and gas-phase basicity (Inline graphicGPB) relative to the most favourable protomer (see text for a definition of these quantities; all values are in kJ/mol); ionized residues (IR); salt-bridges (SB); hydrogen bonds between salt-bridged residues (sHB); ionized hydrogen bonds where either the donor or the acceptor is ionized, Inline graphicA or DInline graphic H-bonds (iHB); neutral hydrogen bonds (HB). Hydrogen bonds are identified according to the donor-acceptor (Inline graphic) distance and the donor-acceptor H-bond angle (Inline graphic). The following geometric criterion was adopted: Inline graphicÅ and Inline graphic. A salt-bridge is formed if the distance between any oxygen atom of the acidic residue and any protonable nitrogen atom of the basic residue is less than 4.0 Å.