Chemical Components in the PDB

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PDBeChem : Atoms of Molecule

 Molecule : Y12

Atoms of a chemical element, that composes a molecule

Total Number of Atoms: 48


Record Atom Name Symbol PDB Name Stereochemistry Is Aromatic Is Leaving Atom Charge X-Coordinate Y-Coordinate Z-Coordinate
1 C2 C C2 N Y N 0 -9.477 -0.43 -0.277
2 C3 C C3 N Y N 0 -8.882 -0.417 0.971
3 C4 C C4 N Y N 0 -7.604 0.088 1.122
4 C5 C C5 N Y N 0 -6.921 0.578 0.025
5 C7 C C7 N N N 0 -5.528 1.128 0.189
6 C8 C C8 N N N 0 -4.509 0.002 -0.001
7 N9 N N9 N N N 0 -3.155 0.537 0.159
8 C10 C C10 N N N 0 -2.089 -0.279 0.033
9 O27 O O27 N N N 0 -2.252 -1.459 -0.213
10 C11 C C11 N N N 0 -0.736 0.255 0.192
11 C12 C C12 N N N 0 0.33 -0.561 0.067
12 C13 C C13 N Y N 0 1.69 -0.025 0.227
13 C18 C C18 N Y N 0 2.798 -0.869 0.096
14 C17 C C17 N Y N 0 4.073 -0.358 0.242
15 O23 O O23 N N N 0 5.152 -1.176 0.116
16 C24 C C24 N N N 0 4.977 -2.499 -0.035
17 O26 O O26 N N N 0 3.871 -2.976 0.056
18 C25 C C25 N N N 0 6.161 -3.387 -0.319
19 C16 C C16 N Y N 0 4.253 0.994 0.53
20 O19 O O19 N N N 0 5.508 1.493 0.678
21 C20 C C20 N N N 0 6.218 1.857 -0.402
22 O22 O O22 N N N 0 5.783 1.647 -1.509
23 C21 C C21 N N N 0 7.556 2.529 -0.233
24 C15 C C15 N Y N 0 3.154 1.833 0.66
25 C14 C C14 N Y N 0 1.88 1.333 0.51
26 C6 C C6 N Y N 0 -7.518 0.57 -1.222
27 C1 C C1 N Y N 0 -8.795 0.061 -1.373
28 H2 H H2 N N N 0 -10.476 -0.825 -0.395
29 H3 H H3 N N N 0 -9.416 -0.801 1.828
30 H4 H H4 N N N 0 -7.139 0.098 2.097
31 H71 H 1H7 N N N 0 -5.419 1.551 1.188
32 H72 H 2H7 N N N 0 -5.354 1.905 -0.555
33 H81 H 1H8 N N N 0 -4.618 -0.42 -1.0
34 H82 H 2H8 N N N 0 -4.683 -0.775 0.743
35 HN9 H HN9 N N N 0 -3.025 1.478 0.355
36 H11 H H11 N N N 0 -0.592 1.303 0.411
37 H12 H H12 N N N 0 0.186 -1.609 -0.152
38 H18 H H18 N N N 0 2.656 -1.918 -0.122
39 H251 H 1H25 N N N 0 6.587 -3.735 0.622
40 H252 H 2H25 N N N 0 5.839 -4.244 -0.911
41 H253 H 3H25 N N N 0 6.913 -2.825 -0.873
42 H211 H 1H21 N N N 0 7.979 2.748 -1.213
43 H212 H 2H21 N N N 0 7.429 3.457 0.324
44 H213 H 3H21 N N N 0 8.228 1.867 0.313
45 H15 H H15 N N N 0 3.299 2.881 0.878
46 H14 H H14 N N N 0 1.027 1.988 0.612
47 H6 H H6 N N N 0 -6.985 0.954 -2.079
48 H1 H H1 N N N 0 -9.259 0.05 -2.348