Chemical Components in the PDB

pdbe.org/chem
wwPDB
EMDataBank
spacer

PDBeChem : Chemical Bonds

 Molecule : YDB    

Bonds between two atoms of the molecule

Total Number of Bonds: 37


Record First Atom Second Atom First Element Second Element Bond Order Type Bond Length Bond Stereochemistry Is Aromatic
1 O6 B1 O B sing 1.42 N N
2 B1 O5 B O sing 1.42 N N
3 B1 C5 B C sing 1.57 N N
4 C6 C5 C C sing 1.53 N N
5 C6 N5 C N sing 1.46 N N
6 C5 N4 C N sing 1.46 N N
7 C7 N5 C N sing 1.35 N Y
8 C7 C8 C C doub 1.37 N Y
9 N5 N7 N N sing 1.4 N Y
10 O2 C9 O C doub 1.21 N N
11 N4 C4 N C sing 1.35 N N
12 C8 C9 C C sing 1.47 N N
13 C8 N6 C N sing 1.34 N Y
14 C9 O3 C O sing 1.35 N N
15 O1 C4 O C doub 1.21 N N
16 N7 N6 N N doub 1.29 N Y
17 C4 C3 C C sing 1.51 N N
18 C3 S1 C S sing 1.81 N N
19 S1 C2 S C sing 1.76 N N
20 C2 N3 C N doub 1.3 N Y
21 C2 S2 C S sing 1.76 N Y
22 N3 N2 N N sing 1.38 N Y
23 S2 C1 S C sing 1.76 N Y
24 N2 C1 N C doub 1.3 N Y
25 C1 N1 C N sing 1.39 N N
26 N1 H1 N H sing 0.97 N N
27 N1 H2 N H sing 0.97 N N
28 C3 H3 C H sing 1.09 N N
29 C3 H4 C H sing 1.09 N N
30 N4 H5 N H sing 0.97 N N
31 C5 H6 C H sing 1.09 N N
32 C6 H7 C H sing 1.09 N N
33 C6 H8 C H sing 1.09 N N
34 C7 H9 C H sing 1.08 N N
35 O3 H10 O H sing 0.97 N N
36 O5 H11 O H sing 0.97 N N
37 O6 H12 O H sing 0.97 N N