Chemical Components in the PDB

pdbe.org/chem
wwPDB
EMDataBank
spacer

PDBeChem : Atoms of Molecule

 Molecule : S5D

Atoms of a chemical element, that composes a molecule

Total Number of Atoms: 54


Record Atom Name Symbol PDB Name Stereochemistry Is Aromatic Is Leaving Atom Charge X-Coordinate Y-Coordinate Z-Coordinate
1 C1 C C1 N Y N 0 -0.131 0.846 -0.103
2 C2 C C2 N Y N 0 -1.293 1.533 -0.399
3 C3 C C3 N Y N 0 -1.281 2.914 -0.467
4 C4 C C4 N Y N 0 -0.108 3.607 -0.238
5 C5 C C5 N Y N 0 1.054 2.92 0.06
6 C6 C C6 N Y N 0 1.043 1.54 0.126
7 N11 N N11 N Y N 0 -5.461 0.289 -0.47
8 C12 C C12 N Y N 0 -6.597 -0.343 -0.721
9 N12 N N12 N N N 0 -7.475 0.169 -1.67
10 C13 C C13 N Y N 0 -6.92 -1.516 -0.045
11 C14 C C14 N Y N 0 -6.038 -2.014 0.896
12 C15 C C15 N Y N 0 -4.857 -1.321 1.13
13 C16 C C16 N Y N 0 -4.601 -0.164 0.423
14 C17 C C17 N N N 0 -6.351 -3.281 1.65
15 C18 C C18 N N N 0 -3.321 0.592 0.672
16 C19 C C19 N N N 0 -2.572 0.777 -0.649
17 N21 N N21 N Y N 0 5.174 0.146 0.49
18 C22 C C22 N Y N 0 6.246 -0.575 0.782
19 N22 N N22 N N N 0 7.052 -0.208 1.853
20 C23 C C23 N Y N 0 6.572 -1.697 0.027
21 C24 C C24 N Y N 0 5.761 -2.052 -1.036
22 C25 C C25 N Y N 0 4.646 -1.269 -1.309
23 C26 C C26 N Y N 0 4.382 -0.169 -0.518
24 C27 C C27 N N N 0 6.079 -3.259 -1.879
25 C28 C C28 N N N 0 3.175 0.684 -0.809
26 C29 C C29 R N N 0 2.311 0.791 0.449
27 N29 N N29 N N N 0 3.052 1.511 1.493
28 H1 H H1 N N N 0 -0.14 -0.232 -0.045
29 H3 H H3 N N N 0 -2.189 3.451 -0.699
30 H4 H H4 N N N 0 -0.099 4.686 -0.291
31 H5 H H5 N N N 0 1.971 3.462 0.238
32 HN12 H HN12 N N N 0 -7.254 0.986 -2.144
33 HN1A H HN1A N N N 0 -8.308 -0.29 -1.858
34 H13 H H13 N N N 0 -7.848 -2.029 -0.252
35 H15 H H15 N N N 0 -4.147 -1.684 1.859
36 H17 H H17 N N N 0 -5.958 -4.137 1.102
37 H17A H H17A N N N 0 -5.889 -3.239 2.637
38 H17B H H17B N N N 0 -7.431 -3.382 1.758
39 H18 H H18 N N N 0 -3.553 1.568 1.098
40 H18A H H18A N N N 0 -2.698 0.031 1.368
41 H19 H H19 N N N 0 -3.196 1.338 -1.345
42 H19A H H19A N N N 0 -2.34 -0.199 -1.074
43 HN22 H HN22 N N N 0 6.828 0.573 2.383
44 HN2A H HN2A N N N 0 7.838 -0.733 2.071
45 H23 H H23 N N N 0 7.447 -2.283 0.267
46 H25 H H25 N N N 0 3.993 -1.518 -2.132
47 H27 H H27 N N N 0 5.591 -4.137 -1.456
48 H27A H H27A N N N 0 5.719 -3.098 -2.895
49 H27B H H27B N N N 0 7.158 -3.416 -1.896
50 H28 H H28 N N N 0 3.498 1.679 -1.113
51 H28A H H28A N N N 0 2.594 0.229 -1.611
52 H29 H H29 N N N 0 2.061 -0.209 0.805
53 HN29 H HN29 N N N 0 3.874 0.996 1.773
54 HN2B H HN2B N N N 0 3.295 2.441 1.187