Chemical Components in the PDB

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PDBeChem : Chemical Bonds

 Molecule : X5C    

Bonds between two atoms of the molecule

Total Number of Bonds: 118


Record First Atom Second Atom First Element Second Element Bond Order Type Bond Length Bond Stereochemistry Is Aromatic
1 O52 C51 O C doub 1.21 N N
2 C51 C50 C C sing 1.51 N N
3 C49 C48 C C sing 1.53 N N
4 C48 C50 C C sing 1.53 N N
5 C48 O47 C O sing 1.43 N N
6 C50 N53 C N sing 1.47 N N
7 N53 C54 N C sing 1.47 N N
8 O47 C45 O C sing 1.43 N N
9 C46 C45 C C sing 1.53 N N
10 C45 C54 C C sing 1.53 N N
11 C45 C37 C C sing 1.53 N N
12 C54 C55 C C sing 1.53 N N
13 C54 C56 C C sing 1.53 N N
14 C38 C37 C C sing 1.53 N N
15 C38 C39 C C sing 1.51 N N
16 C44 C39 C C doub 1.38 N Y
17 C44 C43 C C sing 1.38 N Y
18 C37 N36 C N sing 1.47 N N
19 C56 O57 C O sing 1.43 N N
20 C39 C40 C C sing 1.38 N Y
21 C7 C5 C C doub 1.37 N Y
22 C7 C8 C C sing 1.39 N Y
23 C43 C42 C C doub 1.38 N Y
24 C5 C3 C C sing 1.4 N Y
25 N36 C1 N C sing 1.35 N N
26 C8 C6 C C doub 1.38 N Y
27 C40 C41 C C doub 1.38 N Y
28 C42 C41 C C sing 1.38 N Y
29 C1 O1 C O doub 1.21 N N
30 C1 CA1 C C sing 1.51 N N
31 C3 C4 C C doub 1.41 N Y
32 C3 CG1 C C sing 1.47 N Y
33 C6 C4 C C sing 1.39 N Y
34 CB1 CA1 C C sing 1.53 N N
35 CB1 CG1 C C sing 1.51 N N
36 C4 N2 C N sing 1.38 N Y
37 CA1 N1 C N sing 1.46 N N
38 CG1 C2 C C doub 1.34 N Y
39 N2 C2 N C sing 1.37 N Y
40 N1 C N C sing 1.35 N N
41 O C O C doub 1.21 N N
42 C CA C C sing 1.51 N N
43 CA CB C C sing 1.53 N N
44 CA N C N sing 1.46 N N
45 CB CG C C sing 1.51 N N
46 N C9 N C sing 1.35 N N
47 O2 C9 O C doub 1.21 N N
48 CB2 CG2 C C sing 1.53 N N
49 CB2 CA2 C C sing 1.53 N N
50 CD CG2 C C sing 1.53 N N
51 CD C61 C C sing 1.53 N N
52 C9 CA2 C C sing 1.51 N N
53 CG CD2 C C sing 1.46 N Y
54 CG CD1 C C doub 1.34 N Y
55 CE3 CD2 C C doub 1.4 N Y
56 CE3 CZ3 C C sing 1.37 N Y
57 CD2 CE2 C C sing 1.41 N Y
58 CZ3 CH2 C C doub 1.39 N Y
59 CD1 NE1 C N sing 1.37 N Y
60 CE2 NE1 C N sing 1.38 N Y
61 CE2 CZ2 C C doub 1.39 N Y
62 CH2 CZ2 C C sing 1.38 N Y
63 C2 H1 C H sing 1.08 N N
64 C5 H2 C H sing 1.08 N N
65 C7 H3 C H sing 1.08 N N
66 N H4 N H sing 0.97 N N
67 CA H5 C H sing 1.09 N N
68 CB H6 C H sing 1.09 N N
69 CB H7 C H sing 1.09 N N
70 CD1 H8 C H sing 1.08 N N
71 NE1 H9 N H sing 0.97 N N
72 CE3 H10 C H sing 1.08 N N
73 CZ2 H11 C H sing 1.08 N N
74 CZ3 H12 C H sing 1.08 N N
75 CH2 H13 C H sing 1.08 N N
76 N1 H14 N H sing 0.97 N N
77 CA1 H15 C H sing 1.09 N N
78 CB1 H16 C H sing 1.09 N N
79 CB1 H17 C H sing 1.09 N N
80 N2 H18 N H sing 0.97 N N
81 C6 H19 C H sing 1.08 N N
82 C8 H20 C H sing 1.08 N N
83 CA2 H21 C H sing 1.09 N N
84 CA2 H22 C H sing 1.09 N N
85 CB2 H23 C H sing 1.09 N N
86 CB2 H24 C H sing 1.09 N N
87 CG2 H25 C H sing 1.09 N N
88 CG2 H26 C H sing 1.09 N N
89 CD H27 C H sing 1.09 N N
90 CD H28 C H sing 1.09 N N
91 C61 H29 C H sing 1.09 N N
92 C61 H30 C H sing 1.09 N N
93 C61 H31 C H sing 1.09 N N
94 C37 H32 C H sing 1.09 N N
95 C38 H33 C H sing 1.09 N N
96 C38 H34 C H sing 1.09 N N
97 C40 H35 C H sing 1.08 N N
98 C41 H36 C H sing 1.08 N N
99 C42 H37 C H sing 1.08 N N
100 C43 H38 C H sing 1.08 N N
101 C44 H39 C H sing 1.08 N N
102 C46 H40 C H sing 1.09 N N
103 C46 H41 C H sing 1.09 N N
104 C46 H42 C H sing 1.09 N N
105 C48 H43 C H sing 1.09 N N
106 C49 H44 C H sing 1.09 N N
107 C49 H45 C H sing 1.09 N N
108 C49 H46 C H sing 1.09 N N
109 C50 H47 C H sing 1.09 N N
110 C51 H48 C H sing 1.08 N N
111 C55 H49 C H sing 1.09 N N
112 C55 H50 C H sing 1.09 N N
113 C55 H51 C H sing 1.09 N N
114 C56 H52 C H sing 1.09 N N
115 C56 H53 C H sing 1.09 N N
116 N36 H54 N H sing 0.97 N N
117 N53 H55 N H sing 1.01 N N
118 O57 H57 O H sing 0.97 N N