Chemical Components in the PDB

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PDBeChem : Chemical Bonds

 Molecule : T5S    

Bonds between two atoms of the molecule

Total Number of Bonds: 38


Record First Atom Second Atom First Element Second Element Bond Order Type Bond Length Bond Stereochemistry Is Aromatic
1 P OP3 P O sing 1.61 N N
2 OP3 HOP3 O H sing 0.97 N N
3 OP1 P O P doub 1.48 N N
4 P OP2 P O sing 1.61 N N
5 P O5' P O sing 1.61 N N
6 OP2 HOP2 O H sing 0.97 N N
7 C5' O5' C O sing 1.43 N N
8 C1' N1 C N sing 1.47 N N
9 C6 N1 C N sing 1.37 N N
10 N1 C2 N C sing 1.35 N N
11 C6 C5 C C doub 1.35 N N
12 C6 H6 C H sing 1.08 N N
13 C2 O2 C O doub 1.22 N N
14 C2 N3 C N sing 1.35 N N
15 C4 N3 C N sing 1.35 N N
16 N3 HN3 N H sing 0.97 N N
17 C5 C4 C C sing 1.42 N N
18 C4 O4 C O doub 1.22 N N
19 SE C5 SE C sing 1.96 N N
20 CH3 SE C SE sing 1.96 N N
21 CH3 HH3 C H sing 1.09 N N
22 CH3 HH3A C H sing 1.09 N N
23 CH3 HH3B C H sing 1.09 N N
24 C3' C2' C C sing 1.54 N N
25 C2' C1' C C sing 1.54 N N
26 C2' H2' C H sing 1.09 N N
27 C2' H2'A C H sing 1.09 N N
28 C5' C4' C C sing 1.53 N N
29 C5' H5' C H sing 1.09 N N
30 C5' H5'A C H sing 1.09 N N
31 C3' C4' C C sing 1.54 N N
32 C4' O4' C O sing 1.44 N N
33 C4' H4' C H sing 1.09 N N
34 O4' C1' O C sing 1.44 N N
35 C1' H1' C H sing 1.09 N N
36 O3' C3' O C sing 1.43 N N
37 C3' H3' C H sing 1.09 N N
38 O3' HO3' O H sing 0.97 N N