Chemical Components in the PDB

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PDBeChem : Atoms of Molecule

 Molecule : 8YN

Atoms of a chemical element, that composes a molecule

Total Number of Atoms: 34


Record Atom Name Symbol PDB Name Stereochemistry Is Aromatic Is Leaving Atom Charge X-Coordinate Y-Coordinate Z-Coordinate
1 P P P1 N N N 0 -3.932 1.021 -0.11
2 C1 C C1 N N N 0 2.516 -0.359 -0.375
3 C2 C C2 N N N 0 2.484 0.606 0.646
4 C4 C C3 N N N 0 4.585 1.353 -0.078
5 C6 C C4 N N N 0 3.602 -0.41 -1.201
6 O1P O O1 N N N 0 -4.469 1.803 -1.411
7 O2P O O2 N N N 0 -5.019 0.184 0.446
8 O5' O O3 N N N 0 -2.69 0.084 -0.522
9 C5' C C5 N N N 0 -2.058 -0.817 0.39
10 C4' C C6 R N N 0 -0.919 -1.549 -0.322
11 O4' O O4 N N N 0 0.121 -0.618 -0.665
12 C1' C C7 R N N 0 1.374 -1.327 -0.552
13 O2 O O5 N N N 0 1.529 0.679 1.403
14 N3 N N1 N N N 0 3.529 1.45 0.775
15 N4 N N2 N N N 0 5.641 2.213 0.059
16 N5 N N3 N N N 0 4.608 0.445 -1.033
17 C2' C C8 N N N 0 1.188 -2.19 0.722
18 C3' C C9 S N N 0 -0.302 -2.6 0.621
19 O3' O O6 N N N 0 -0.423 -3.908 0.06
20 H6 H H1 N N N 0 3.644 -1.144 -1.991
21 H1 H H2 N N N 0 -5.219 2.388 -1.237
22 H52' H H4 N N N 0 -1.658 -0.257 1.235
23 H51' H H5 N N N 0 -2.789 -1.542 0.749
24 H4' H H6 N N N 0 -1.296 -2.033 -1.223
25 H1' H H7 N N N 0 1.539 -1.958 -1.426
26 H3 H H8 N N N 0 3.528 2.124 1.473
27 H41 H H9 N N N 0 5.633 2.884 0.759
28 H42 H H10 N N N 0 6.398 2.151 -0.545
29 H22' H H11 N N N 0 1.835 -3.066 0.696
30 H21' H H12 N N N 0 1.37 -1.601 1.621
31 H3' H H13 N N N 0 -0.776 -2.559 1.601
32 H4 H H14 N N N 0 -0.051 -4.609 0.612
33 O3P O O3P N N Y 0 -3.456 2.088 0.998
34 H2 H H15 N N Y 0 -2.744 2.671 0.702