Chemical Components in the PDB

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PDBeChem : Chemical Bonds

 Molecule : I5D    

Bonds between two atoms of the molecule

Total Number of Bonds: 46


Record First Atom Second Atom First Element Second Element Bond Order Type Bond Length Bond Stereochemistry Is Aromatic
1 C14 C15 C C sing 1.53 N N
2 C14 C13 C C sing 1.53 N N
3 C15 C13 C C sing 1.53 N N
4 C13 C12 C C sing 1.53 N N
5 OP3 C12 O C sing 1.43 N N
6 OP3 C11 O C sing 1.36 N N
7 C16 C11 C C doub 1.39 N Y
8 C16 C17 C C sing 1.38 N Y
9 C11 C10 C C sing 1.39 N Y
10 N2 CAA N C trip 1.14 N N
11 C17 C4' C C doub 1.4 N Y
12 C10 C5' C C doub 1.38 N Y
13 CAA C2' C C sing 1.43 N N
14 C4' C5' C C sing 1.4 N Y
15 C4' C3' C C sing 1.48 N N
16 C2' C3' C C doub 1.41 N Y
17 C2' C1' C C sing 1.41 N Y
18 C3' C18 C C sing 1.41 N Y
19 S1 C1' S C sing 1.76 N N
20 S1 C5 S C sing 1.81 N N
21 C1' N9 C N doub 1.32 N Y
22 C18 C19 C C sing 1.43 N N
23 C18 C8 C C doub 1.41 N Y
24 C19 N3 C N trip 1.14 N N
25 N1 C6 N C sing 1.35 N N
26 N9 C8 N C sing 1.32 N Y
27 C5 C6 C C sing 1.51 N N
28 C6 O6 C O doub 1.21 N N
29 C8 NAA C N sing 1.38 N N
30 N1 H1 N H sing 0.97 N N
31 N1 H2 N H sing 0.97 N N
32 C5 H3 C H sing 1.09 N N
33 C5 H4 C H sing 1.09 N N
34 C10 H5 C H sing 1.08 N N
35 C13 H6 C H sing 1.09 N N
36 C15 H7 C H sing 1.09 N N
37 C15 H8 C H sing 1.09 N N
38 C17 H9 C H sing 1.08 N N
39 C12 H10 C H sing 1.09 N N
40 C12 H11 C H sing 1.09 N N
41 C14 H12 C H sing 1.09 N N
42 C14 H13 C H sing 1.09 N N
43 C16 H14 C H sing 1.08 N N
44 C5' H15 C H sing 1.08 N N
45 NAA H16 N H sing 0.97 N N
46 NAA H17 N H sing 0.97 N N