2QNH
interactions and dynamics of the shine-dalgarno helix in the 70s ribosome. this file, 2qnh, contains the 30s ribosome subunit, two trna, and mrna molecules. 50s ribosome subunit is in the file 1vsp.
Total interactions analyzed 276
Total true interactions 22
Strongest Interaction Chains c-i
Int. Res. 38
Norm. En. per Res. -4.3156
Hub Node D(4)
Click on the Nodes or Edges in the network to see the details
Weak Strong
Width of edge <-> No. of inter. res.
All Interactions
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Chains Hydro. Bond Ener. (kJ/mol) Elec. Ener. (kJ/mol) VDW. Ener. (kJ/mol) Tot. Stab. Ener. (kJ/mol) #int. res. # Short cont. #Hydr. int. #VDW pairs #salt bridges #Pot. fav. elec. int #Pot. unfav. elec. int int. res.
c-f 0.0 0.0 -0.1161 -0.1161 8 0 0 37 0 1 4
c-i -18.8798 -48.5426 -96.5697 -163.992 38 10 0 3786 3 16 14
d-e 0.0 5.5473 -1.157 4.3903 7 0 0 180 0 0 8
d-f 0.0 -11.9585 -26.2702 -38.2287 22 3 0 1512 0 5 4
d-k 0.0 11.0795 -93.2508 -82.1713 54 14 2 4305 0 18 25
d-o -6.13 19.3355 -122.227 -109.0215 70 23 3 6828 0 16 41
e-f -42.4083 -16.5113 -130.805 -189.7246 67 18 2 5704 4 15 16
f-i -16.0676 -48.1953 -137.217 -201.4799 75 29 2 7963 0 49 50
g-p 0.0 0.0 -2.8716 -2.8716 7 4 0 345 0 4 2
g-s -23.4867 -30.3177 -189.162 -242.9664 81 23 8 9010 1 11 16
h-j 0.0 0.0 -29.1945 -29.1945 40 8 3 2366 0 8 7
h-l -2.4196 0.0 -46.6805 -49.1001 28 6 3 2083 0 3 5
i-m 0.0 0.0 -10.2288 -10.2288 8 0 0 538 0 0 1
i-r 0.0 6.2097 -28.5398 -22.3301 18 8 0 1541 0 1 9
j-k 0.0 13.1358 -21.876 -8.7402 18 1 0 905 0 5 12
j-o 0.0 0.0 -8.197 -8.197 8 0 0 375 0 0 0
k-o -4.1945 11.2049 -115.491 -108.4806 44 16 3 5331 0 14 33
l-s 0.0 -9.5778 -65.5161 -75.0939 31 4 2 2782 0 12 15
m-r 0.0 0.0 -23.321 -23.321 21 0 2 1496 0 0 9
n-t -12.7408 1.0146 -71.9407 -83.667 40 7 2 3441 0 11 16
n-v 0.0 2.4803 -11.8797 -9.3994 12 2 0 505 0 2 9
p-r 0.0 0.0 -1.7013 -1.7013 15 0 0 205 0 14 11