Chemical Components in the PDB

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PDBeChem : Atoms of Molecule

 Molecule : SPD

Atoms of a chemical element, that composes a molecule

Total Number of Atoms: 29


Record Atom Name Symbol PDB Name Stereochemistry Is Aromatic Is Leaving Atom Charge X-Coordinate Y-Coordinate Z-Coordinate
1 N1 N N1 N N N 0 -0.355 -0.007 5.52
2 C2 C C2 N N N 0 0.495 -0.03 4.323
3 C3 C C3 N N N 0 -0.383 -0.007 3.071
4 C4 C C4 N N N 0 0.502 -0.031 1.824
5 C5 C C5 N N N 0 -0.377 -0.008 0.573
6 N6 N N6 N N N 0 0.474 -0.031 -0.623
7 C7 C C7 N N N 0 -0.427 -0.007 -1.783
8 C8 C C8 N N N 0 0.397 -0.03 -3.071
9 C9 C C9 N N N 0 -0.541 -0.005 -4.279
10 N10 N N10 N N N 0 0.25 -0.027 -5.516
11 HN11 H 1HN1 N N N 0 -0.816 0.89 5.53
12 HN12 H 2HN1 N N N 0 0.263 -0.023 6.316
13 H21 H 1H2 N N N 0 1.148 0.842 4.324
14 H22 H 2H2 N N N 0 1.1 -0.937 4.325
15 H31 H 1H3 N N N 0 -1.037 -0.879 3.07
16 H32 H 2H3 N N N 0 -0.988 0.899 3.069
17 H41 H 1H4 N N N 0 1.155 0.841 1.826
18 H42 H 2H4 N N N 0 1.107 -0.938 1.826
19 H51 H 1H5 N N N 0 -1.03 -0.88 0.571
20 H52 H 2H5 N N N 0 -0.982 0.898 0.571
21 HN6 H HN6 N N N 0 0.983 0.839 -0.634
22 H71 H 1H7 N N N 0 -1.08 -0.879 -1.754
23 H72 H 2H7 N N N 0 -1.031 0.899 -1.754
24 H81 H 1H8 N N N 0 1.05 0.842 -3.1
25 H82 H 2H8 N N N 0 1.001 -0.936 -3.1
26 H91 H 1H9 N N N 0 -1.194 -0.877 -4.25
27 H92 H 2H9 N N N 0 -1.145 0.901 -4.25
28 H101 H 1H10 N N N 0 -0.406 -0.009 -6.281
29 H102 H 2H10 N N N 0 0.759 0.843 -5.55