Chemical Components in the PDB

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PDBeChem : Atoms of Molecule

 Molecule : DBM

Atoms of a chemical element, that composes a molecule

Total Number of Atoms: 36


Record Atom Name Symbol PDB Name Stereochemistry Is Aromatic Is Leaving Atom Charge X-Coordinate Y-Coordinate Z-Coordinate
1 O5' O O5' N N N 0 0.522 -0.329 5.129
2 C5' C C5' R N N 0 1.156 -0.118 3.865
3 C6' C C6' N N N 0 2.322 0.857 4.036
4 C4' C C4' R N N 0 0.144 0.465 2.878
5 O4' O O4' N N N 0 0.762 0.643 1.592
6 C1' C C1' R N N 0 -0.254 0.393 0.598
7 N9 N N9 N Y N 0 0.356 0.055 -0.689
8 C8 C C8 N Y N 0 1.566 -0.543 -0.875
9 N7 N N7 N Y N 0 1.798 -0.696 -2.147
10 C5 C C5 N Y N 0 0.755 -0.205 -2.859
11 C4 C C4 N Y N 0 -0.187 0.279 -1.929
12 N3 N N3 N Y N 0 -1.31 0.823 -2.376
13 C2 C C2 N Y N 0 -1.545 0.9 -3.67
14 N1 N N1 N Y N 0 -0.691 0.453 -4.572
15 C6 C C6 N Y N 0 0.456 -0.099 -4.218
16 C7 C C7 N N N 0 1.421 -0.604 -5.259
17 C2' C C2' R N N 0 -1.031 -0.818 1.172
18 O2' O O2' N N N 0 -2.365 -0.858 0.66
19 C3' C C3' S N N 0 -1.031 -0.514 2.693
20 O3' O O3' N N N 0 -2.264 0.095 3.081
21 H5' H H5' N N N 0 0.207 0.533 5.43
22 H1 H H1 N N N 0 1.53 -1.068 3.484
23 H6'1 H 1H6' N N N 0 3.044 0.441 4.74
24 H6'2 H 2H6' N N N 0 2.806 1.018 3.073
25 H6'3 H 3H6' N N N 0 1.948 1.807 4.418
26 H4' H H4' N N N 0 -0.225 1.421 3.248
27 H1' H H1' N N N 0 -0.911 1.256 0.495
28 H8 H H8 N N N 0 2.234 -0.847 -0.083
29 H2 H H2 N N N 0 -2.471 1.345 -4.005
30 H71 H 1H7 N N N 0 1.2 -1.648 -5.483
31 H72 H 2H7 N N N 0 1.32 -0.009 -6.167
32 H73 H 3H7 N N N 0 2.44 -0.521 -4.882
33 H2' H H2' N N N 0 -0.508 -1.751 0.961
34 H3 H H3 N N N 0 -2.792 -1.631 1.054
35 H4 H H4 N N N 0 -2.964 -0.542 2.886
36 H3' H H3' N N N 0 -0.861 -1.426 3.265