Chemical Components in the PDB

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PDBeChem : Chemical Bonds

 Molecule : 5YY    

Bonds between two atoms of the molecule

Total Number of Bonds: 91


Record First Atom Second Atom First Element Second Element Bond Order Type Bond Length Bond Stereochemistry Is Aromatic
1 C17 N3 C N sing 1.46 N N
2 N3 C16 N C sing 1.35 N N
3 N3 C18 N C sing 1.35 N N
4 O3 C16 O C doub 1.22 N N
5 C16 C14 C C sing 1.41 N N
6 C18 C12 C C doub 1.38 N N
7 N2 C10 N C sing 1.36 N Y
8 N2 C11 N C doub 1.31 N Y
9 C9 C10 C C doub 1.4 N Y
10 C9 C8 C C sing 1.38 N Y
11 C14 C15 C C sing 1.51 N N
12 C14 C13 C C doub 1.36 N N
13 C12 C13 C C sing 1.41 N N
14 C12 C11 C C sing 1.48 N N
15 C10 C25 C C sing 1.41 N Y
16 C11 N4 C N sing 1.37 N Y
17 C8 C7 C C doub 1.39 N Y
18 C25 N4 C N sing 1.38 N Y
19 C25 C26 C C doub 1.39 N Y
20 N C4 N C sing 1.35 N N
21 N C3 N C sing 1.46 N N
22 N4 C19 N C sing 1.46 N N
23 C7 C26 C C sing 1.38 N Y
24 C7 C6 C C sing 1.51 N N
25 C1 C C C sing 1.53 N N
26 C1 O C O sing 1.45 N N
27 C4 O2 C O doub 1.21 N N
28 C4 C5 C C sing 1.51 N N
29 O1 C2 O C doub 1.21 N N
30 C3 C2 C C sing 1.51 N N
31 C2 O C O sing 1.34 N N
32 C5 N1 C N sing 1.46 N N
33 C6 N1 C N sing 1.47 N N
34 C19 C20 C C sing 1.53 N N
35 N1 C27 N C sing 1.35 N N
36 C24 C20 C C sing 1.53 N N
37 C24 C23 C C sing 1.53 N N
38 C20 C21 C C sing 1.53 N N
39 C27 O5 C O doub 1.22 N N
40 C27 C28 C C sing 1.48 N N
41 C21 C22 C C sing 1.53 N N
42 C23 O4 C O sing 1.43 N N
43 C28 C33 C C doub 1.4 N Y
44 C28 C29 C C sing 1.4 N Y
45 C33 C32 C C sing 1.36 N Y
46 C29 C30 C C doub 1.36 N Y
47 O4 C22 O C sing 1.43 N N
48 C32 C31 C C doub 1.47 N Y
49 C30 C31 C C sing 1.47 N Y
50 C31 N5 C N sing 1.32 N N
51 N5 N6 N N doub 1.12 N N
52 N6 N7 N N doub 1.12 N N
53 C5 H1 C H sing 1.09 N N
54 C5 H2 C H sing 1.09 N N
55 C6 H3 C H sing 1.09 N N
56 C6 H4 C H sing 1.09 N N
57 C8 H5 C H sing 1.08 N N
58 C13 H6 C H sing 1.08 N N
59 C15 H7 C H sing 1.09 N N
60 C15 H8 C H sing 1.09 N N
61 C15 H9 C H sing 1.09 N N
62 C17 H10 C H sing 1.09 N N
63 C17 H11 C H sing 1.09 N N
64 C17 H12 C H sing 1.09 N N
65 C20 H13 C H sing 1.09 N N
66 C21 H14 C H sing 1.09 N N
67 C21 H15 C H sing 1.09 N N
68 C22 H16 C H sing 1.09 N N
69 C22 H17 C H sing 1.09 N N
70 C24 H18 C H sing 1.09 N N
71 C24 H19 C H sing 1.09 N N
72 C26 H20 C H sing 1.08 N N
73 N7 H21 N H sing 0.97 N N
74 C30 H22 C H sing 1.08 N N
75 C29 H23 C H sing 1.08 N N
76 C32 H24 C H sing 1.08 N N
77 C33 H25 C H sing 1.08 N N
78 N H26 N H sing 0.97 N N
79 C3 H27 C H sing 1.09 N N
80 C3 H28 C H sing 1.09 N N
81 C1 H29 C H sing 1.09 N N
82 C1 H30 C H sing 1.09 N N
83 C H31 C H sing 1.09 N N
84 C H32 C H sing 1.09 N N
85 C H33 C H sing 1.09 N N
86 C9 H34 C H sing 1.08 N N
87 C19 H35 C H sing 1.09 N N
88 C19 H36 C H sing 1.09 N N
89 C23 H37 C H sing 1.09 N N
90 C23 H38 C H sing 1.09 N N
91 C18 H39 C H sing 1.08 N N