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. Author manuscript; available in PMC: 2014 May 24.
Published in final edited form as: J Chem Inf Model. 2013 May 15;53(5):1127–1137. doi: 10.1021/ci400147s

Table 3.

Carbohydrate-peptide and peptide-peptide hydrogen bond occupancies.a

Comp. No. Carbohydrate-Peptide
H-bond Occupancy
Peptide-Peptide
H-bond Occupancy

GalNAc (HN) –
1T/1S (O)
GalNAc (O) –
4A (HN)
4A (O)-
7V/7A (HN)
3P (O)-
6V/6A (HN)
5A/5V (O)-
8V/8A (HN)

1 0.672 0.092 0.035 0.103 0.050
2 0.292 0.059 0.020 0.106 ---
3 0.491 0.122 0.092 0.282 0.102
4 0.653 0.064 --- 0.177 ---
5 0.638 0.098 --- 0.026 ---
6 0.706 0.127 0.164 0.070 0.039
7 0.664 0.117 0.011 0.034 0.034
8 0.527 0.059 0.015 0.019 0.081
9* 0.629 0.103 0.625 0.623 0.492
10 0.621 0.082 --- --- 0.093
11* 0.681 0.091 0.481 0.531 0.247
12 --- 0.015 0.014
13 0.043 0.096 0.023
14 0.520 0.465 --- --- ----
a

Occupancies calculated using a H-bond cutoff distance of 3.5 Å.

*

Additional H-bonds between 3P(O)-7A(HN) (0.589 and 0.436) and 4A(O)-8A(HN) (0.543 and 0.209) found in 9 and 11.