Chemical Components in the PDB

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PDBeChem : Atoms of Molecule

 Molecule : AP7

Atoms of a chemical element, that composes a molecule

Total Number of Atoms: 38


Record Atom Name Symbol PDB Name Stereochemistry Is Aromatic Is Leaving Atom Charge X-Coordinate Y-Coordinate Z-Coordinate
1 C1' C C1' R N N 0 -0.717 0.818 -0.421
2 N1 N N1 N Y N 1 -5.765 -0.407 -0.38
3 C2 C C2 N Y N 0 -5.19 0.712 -0.782
4 N3 N N3 N Y N 0 -3.887 0.893 -0.738
5 C4 C C4 N Y N 0 -3.086 -0.063 -0.277
6 C5 C C5 N Y N 0 -3.649 -1.272 0.163
7 C6 C C6 N Y N 0 -5.045 -1.418 0.095
8 N6 N N6 N N N 0 -5.656 -2.586 0.515
9 N7 N N7 N Y N 0 -2.628 -2.061 0.575
10 C8 C C8 N Y N 0 -1.501 -1.428 0.42
11 N9 N N9 N Y N 0 -1.731 -0.191 -0.103
12 C2' C C2' R N N 0 -0.55 1.814 0.754
13 O2' O O2' N N N 0 -1.497 2.879 0.659
14 C3' C C3' S N N 0 0.891 2.335 0.536
15 O3' O O3' N N N 0 0.871 3.588 -0.151
16 C4' C C4' R N N 0 1.556 1.253 -0.336
17 O4' O O4' N N N 0 0.587 0.209 -0.535
18 C5' C C5' N N N 0 2.786 0.691 0.379
19 O5' O O5' N N N 0 3.462 -0.226 -0.484
20 OP1 O O1P N N N 0 4.562 -1.745 1.206
21 OP2 O O2P N N N 0 5.21 -2.049 -1.215
22 P P P N N N 0 4.802 -1.008 -0.056
23 OP3 O O3P N N Y 0 5.996 0.051 0.16
24 H1' H H1' N N N 0 -0.978 1.347 -1.338
25 H1 H H1 N N N 0 -6.73 -0.491 -0.43
26 H2 H H2 N N N 0 -5.812 1.509 -1.162
27 H61 H H61 N N N 0 -6.621 -2.674 0.463
28 H62 H H62 N N N 0 -5.12 -3.317 0.86
29 H8 H H8 N N N 0 -0.528 -1.825 0.669
30 H2' H H2' N N N 0 -0.638 1.303 1.713
31 HO2' H HO'2 N N N 0 -1.433 3.529 1.372
32 H3' H H3' N N N 0 1.411 2.432 1.489
33 HO3' H H3T N N Y 0 0.413 4.292 0.328
34 H4' H H4' N N N 0 1.845 1.677 -1.298
35 H5'' H H5'2 N N N 0 3.46 1.508 0.639
36 H5' H H5'1 N N N 0 2.475 0.174 1.286
37 HOP2 H HOP2 N N N 0 6.011 -2.556 -1.024
38 HOP3 H HOP3 N N N 0 6.208 0.57 -0.628