Chemical Components in the PDB

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PDBeChem : Chemical Bonds

 Molecule : TDL    

Bonds between two atoms of the molecule

Total Number of Bonds: 56


Record First Atom Second Atom First Element Second Element Bond Order Type Bond Length Bond Stereochemistry Is Aromatic
1 O1B PB O P doub 1.48 N N
2 PB O2B P O sing 1.61 N N
3 PB O3B P O sing 1.61 N N
4 PB O3A P O sing 1.61 N N
5 O2B H2B O H sing 0.97 N N
6 O3B H3B O H sing 0.97 N N
7 O3A PA O P sing 1.61 N N
8 PA O1A P O doub 1.48 N N
9 PA O2A P O sing 1.61 N N
10 PA O7 P O sing 1.61 N N
11 O2A H2A O H sing 0.97 N N
12 O7 C7 O C sing 1.43 N N
13 C7 C6 C C sing 1.53 N N
14 C7 H71 C H sing 1.09 N N
15 C7 H72 C H sing 1.09 N N
16 C6 C5 C C sing 1.51 N N
17 C6 H61 C H sing 1.09 N N
18 C6 H62 C H sing 1.09 N N
19 C5 S1 C S sing 1.76 N Y
20 C5 C4 C C doub 1.34 N Y
21 S1 C2 S C sing 1.71 N Y
22 C4 CM4 C C sing 1.51 N N
23 C4 N3 C N sing 1.32 N Y
24 CM4 HM41 C H sing 1.09 N N
25 CM4 HM42 C H sing 1.09 N N
26 CM4 HM43 C H sing 1.09 N N
27 N3 C2 N C doub 1.29 N Y
28 N3 C7' N C sing 1.47 N N
29 C2 CLA C C sing 1.51 N N
30 CLA OL1 C O sing 1.43 N N
31 CLA CLB C C sing 1.53 N N
32 CLA CLC C C sing 1.51 N N
33 OL1 HL1 O H sing 0.97 N N
34 CLB HLB1 C H sing 1.09 N N
35 CLB HLB2 C H sing 1.09 N N
36 CLB HLB3 C H sing 1.09 N N
37 CLC OL2 C O sing 1.34 N N
38 CLC OL3 C O doub 1.21 N N
39 OL2 HL2 O H sing 0.97 N N
40 C7' C5' C C sing 1.51 N N
41 C7' H7'1 C H sing 1.09 N N
42 C7' H7'2 C H sing 1.09 N N
43 C5' C6' C C sing 1.38 N Y
44 C5' C4' C C doub 1.4 N Y
45 C6' N1' C N doub 1.33 N Y
46 C6' H6' C H sing 1.08 N N
47 N1' C2' N C sing 1.32 N Y
48 C2' CM2 C C sing 1.51 N N
49 C2' N3' C N doub 1.32 N Y
50 CM2 HM21 C H sing 1.09 N N
51 CM2 HM22 C H sing 1.09 N N
52 CM2 HM23 C H sing 1.09 N N
53 N3' C4' N C sing 1.33 N Y
54 C4' N4' C N sing 1.39 N N
55 N4' H4'1 N H sing 0.97 N N
56 N4' H4'2 N H sing 0.97 N N