Chemical Components in the PDB

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PDBeChem : Chemical Bonds

 Molecule : MCD    

Bonds between two atoms of the molecule

Total Number of Bonds: 99


Record First Atom Second Atom First Element Second Element Bond Order Type Bond Length Bond Stereochemistry Is Aromatic
1 C8 N9 C N sing 1.36 N Y
2 C8 N7 C N doub 1.3 N Y
3 C8 H8 C H sing 1.08 N N
4 N9 C4 N C sing 1.37 N Y
5 N9 C1' N C sing 1.46 N N
6 C4 C5 C C sing 1.4 N Y
7 C4 N3 C N doub 1.33 N Y
8 C5 N7 C N sing 1.35 N Y
9 C5 C6 C C doub 1.4 N Y
10 N3 C2 N C sing 1.32 N Y
11 C2 N1 C N doub 1.32 N Y
12 C2 H2 C H sing 1.08 N N
13 N1 C6 N C sing 1.33 N Y
14 C6 N6 C N sing 1.38 N N
15 N6 HN61 N H sing 0.97 N N
16 N6 HN62 N H sing 0.97 N N
17 C1' C2' C C sing 1.55 N N
18 C1' O4' C O sing 1.44 N N
19 C1' H1' C H sing 1.09 N N
20 C2' O2' C O sing 1.43 N N
21 C2' C3' C C sing 1.55 N N
22 C2' H2' C H sing 1.09 N N
23 O2' HO2' O H sing 0.97 N N
24 C3' O3' C O sing 1.43 N N
25 C3' C4' C C sing 1.54 N N
26 C3' H3' C H sing 1.09 N N
27 O3' P3 O P sing 1.61 N N
28 C4' O4' C O sing 1.44 N N
29 C4' C5' C C sing 1.53 N N
30 C4' H4' C H sing 1.09 N N
31 C5' O5' C O sing 1.43 N N
32 C5' H5'1 C H sing 1.09 N N
33 C5' H5'2 C H sing 1.09 N N
34 O5' P1 O P sing 1.61 N N
35 P1 O11 P O doub 1.48 N N
36 P1 O12 P O sing 1.61 N N
37 P1 O6 P O sing 1.61 N N
38 O12 H12 O H sing 0.97 N N
39 O6 P2 O P sing 1.61 N N
40 P2 O21 P O doub 1.48 N N
41 P2 O22 P O sing 1.61 N N
42 P2 O7 P O sing 1.61 N N
43 O22 H22 O H sing 0.97 N N
44 O7 CPB O C sing 1.43 N N
45 CPB CPA C C sing 1.53 N N
46 CPB HPB1 C H sing 1.09 N N
47 CPB HPB2 C H sing 1.09 N N
48 CPA CP7 C C sing 1.53 N N
49 CPA CP9 C C sing 1.53 N N
50 CPA CP8 C C sing 1.53 N N
51 CP7 OP3 C O sing 1.43 N N
52 CP7 CP6 C C sing 1.51 N N
53 CP7 HP7 C H sing 1.09 N N
54 CP9 HP91 C H sing 1.09 N N
55 CP9 HP92 C H sing 1.09 N N
56 CP9 HP93 C H sing 1.09 N N
57 CP8 HP81 C H sing 1.09 N N
58 CP8 HP82 C H sing 1.09 N N
59 CP8 HP83 C H sing 1.09 N N
60 OP3 HOP3 O H sing 0.97 N N
61 CP6 OP2 C O doub 1.21 N N
62 CP6 NP2 C N sing 1.35 N N
63 NP2 CP5 N C sing 1.47 N N
64 NP2 HNP2 N H sing 0.97 N N
65 CP5 CP4 C C sing 1.53 N N
66 CP5 HP51 C H sing 1.09 N N
67 CP5 HP52 C H sing 1.09 N N
68 CP4 CP3 C C sing 1.51 N N
69 CP4 HP41 C H sing 1.09 N N
70 CP4 HP42 C H sing 1.09 N N
71 CP3 OP1 C O doub 1.21 N N
72 CP3 NP1 C N sing 1.35 N N
73 NP1 CP2 N C sing 1.46 N N
74 NP1 HNP1 N H sing 0.97 N N
75 CP2 CP1 C C sing 1.53 N N
76 CP2 HP21 C H sing 1.09 N N
77 CP2 HP22 C H sing 1.09 N N
78 CP1 CPS C C sing 1.53 N N
79 CP1 HP11 C H sing 1.09 N N
80 CP1 HP12 C H sing 1.09 N N
81 P3 O31 P O doub 1.48 N N
82 P3 O32 P O sing 1.61 N N
83 P3 O33 P O sing 1.61 N N
84 O32 H32 O H sing 0.97 N N
85 O33 H33 O H sing 0.97 N N
86 CPS CS1 C C sing 1.51 N N
87 CPS HPS1 C H sing 1.09 N N
88 CPS HPS2 C H sing 1.09 N N
89 CS1 OS1 C O doub 1.21 N N
90 CS1 CS2 C C sing 1.51 N N
91 CS2 CS3 C C sing 1.53 N N
92 CS2 CS4 C C sing 1.51 N N
93 CS2 HS2 C H sing 1.09 N N
94 CS3 HS31 C H sing 1.09 N N
95 CS3 HS32 C H sing 1.09 N N
96 CS3 HS33 C H sing 1.09 N N
97 CS4 OS4 C O doub 1.21 N N
98 CS4 OS5 C O sing 1.34 N N
99 OS5 HOS5 O H sing 0.97 N N