Chemical Components in the PDB

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PDBeChem : Atoms of Molecule

 Molecule : 1YJ

Atoms of a chemical element, that composes a molecule

Total Number of Atoms: 55


Record Atom Name Symbol PDB Name Stereochemistry Is Aromatic Is Leaving Atom Charge X-Coordinate Y-Coordinate Z-Coordinate
1 C C C N N N 0 -6.181 1.745 -0.298
2 C1' C C1' N Y N 0 -1.745 1.144 -0.253
3 C11 C C11 N N N 0 -3.118 1.076 -0.788
4 C2 C C2 N N N 0 6.251 -1.979 -1.349
5 C2' C C2' N Y N 0 -0.725 1.722 -1.013
6 C3' C C3' N Y N 0 0.555 1.785 -0.511
7 C4 C C4 N N N 0 5.289 -1.754 0.783
8 C4' C C4' N Y N 0 0.834 1.273 0.754
9 C4A C C4A N N N 0 5.297 -0.367 0.599
10 C5' C C5' N Y N 0 -0.18 0.692 1.511
11 C6 C C6 R N N 0 4.509 1.893 1.243
12 C6' C C6' N Y N 0 -1.462 0.632 1.017
13 C7 C C7 N N N 0 5.656 2.418 0.367
14 C8A C C8A N N N 0 5.791 0.153 -0.589
15 C9 C C9 N N N 0 3.195 1.95 0.463
16 CA C CA S N N 0 -5.464 0.451 -0.586
17 CB C CB N N N 0 -6.214 -0.706 0.078
18 CD C CD N N N 0 -6.298 -3.171 0.338
19 CG C CG N N N 0 -5.559 -2.031 -0.316
20 H1 H H1 N N N 0 5.901 1.889 -1.684
21 H10 H H10 N N N 0 -0.94 2.12 -1.994
22 H11 H H11 N N N 0 -2.249 0.185 1.607
23 H12 H H12 N N N 0 0.041 0.292 2.49
24 H13 H H13 N N N 0 -3.906 0.162 0.827
25 H14 H H14 N N N 0 -5.426 0.288 -1.663
26 H15 H H15 N N N 0 -7.87 2.758 -0.489
27 H16 H H16 N N N 0 -6.175 -0.59 1.161
28 H17 H H17 N N N 0 -7.253 -0.702 -0.251
29 H18 H H18 N N N 0 -5.598 -2.148 -1.399
30 H19 H H19 N N N 0 -4.52 -2.035 0.013
31 H2 H H2 N N N 0 3.305 1.406 -0.475
32 H20 H H20 N N N 0 -6.402 -5.132 0.575
33 H21 H H21 N N N 0 6.739 -3.757 -2.218
34 H22 H H22 N N N 0 7.08 -2.409 -3.161
35 H23 H H23 N N N 0 5.781 -3.502 -0.096
36 H3 H H3 N N N 0 6.582 2.427 0.942
37 H4 H H4 N N N 0 5.425 3.427 0.026
38 H5 H H5 N N N 0 4.429 2.498 2.146
39 H6 H H6 N N N 0 4.678 0.181 2.51
40 H7 H H7 N N N 0 2.323 0.979 2.138
41 H8 H H8 N N N 0 2.941 2.989 0.253
42 H9 H H9 N N N 0 1.344 2.232 -1.097
43 N N N N N N 0 -4.101 0.518 -0.054
44 N1 N N1 N N N 0 6.257 -0.676 -1.531
45 N10 N N10 N N N 0 2.127 1.338 1.259
46 N2 N N2 N N N 0 6.738 -2.795 -2.339
47 N3 N N3 N N N 0 5.775 -2.538 -0.203
48 N5 N N5 N N N 0 4.808 0.498 1.602
49 N8 N N8 N N N 0 5.8 1.524 -0.791
50 O11 O O11 N N N 0 -3.363 1.523 -1.892
51 O4 O O4 N N N 0 4.859 -2.244 1.817
52 OE1 O OE1 N N N 0 -7.25 -2.945 1.047
53 OE2 O OE2 N N N 0 -5.897 -4.435 0.134
54 OX1 O OX1 N N N 0 -5.611 2.633 0.291
55 OX2 O OX2 N N N 0 -7.452 1.911 -0.696