Chemical Components in the PDB

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PDBeChem : Atoms of Molecule

 Molecule : 8DD

Atoms of a chemical element, that composes a molecule

Total Number of Atoms: 42


Record Atom Name Symbol PDB Name Stereochemistry Is Aromatic Is Leaving Atom Charge X-Coordinate Y-Coordinate Z-Coordinate
1 N1 N N1 N Y N 0 -6.313 2.128 0.971
2 C2 C C2 N Y N 0 -5.67 1.567 1.977
3 N3 N N3 N Y N 0 -4.641 0.765 1.794
4 C4 C C4 N Y N 0 -4.207 0.488 0.569
5 C5 C C5 N Y N 0 -4.859 1.061 -0.525
6 C6 C C6 N Y N 0 -5.944 1.903 -0.288
7 N6 N N6 N N N 0 -6.624 2.496 -1.342
8 N7 N N7 N N N 0 -4.207 0.607 -1.668
9 C8 C C8 N N N 0 -3.203 -0.205 -1.282
10 O8 O O8 N N N 0 -2.431 -0.772 -2.033
11 N9 N N9 N N N 0 -3.183 -0.291 0.062
12 PA P PA N N N 0 3.503 -0.586 -0.299
13 PB P PB N N N 0 5.371 1.651 0.248
14 C1' C C1' R N N 0 -2.236 -1.079 0.854
15 O1A O O1A N N N 0 3.333 -0.149 -1.702
16 O1B O O1B N N N 0 5.955 2.217 1.637
17 C2' C C2' N N N 0 -2.436 -2.58 0.569
18 O2A O O2A N N N 0 4.438 -1.895 -0.254
19 O2B O O2B N N N 0 6.453 0.979 -0.505
20 C3' C C3' S N N 0 -1.057 -3.055 0.049
21 O3' O O3' N N N 0 -0.72 -4.334 0.589
22 O3A O O3A N N N 0 4.193 0.595 0.551
23 O3B O O3B N N N 0 4.787 2.87 -0.626
24 C4' C C4' R N N 0 -0.109 -1.957 0.596
25 O4' O O4' N N N 0 -0.889 -0.748 0.477
26 C5' C C5' N N N 0 1.159 -1.866 -0.257
27 O5' O O5' N N N 0 2.064 -0.932 0.334
28 H2 H H2 N N N 0 -5.999 1.772 2.985
29 HN6 H HN6 N N N 0 -7.378 3.08 -1.166
30 HN6A H HN6A N N N 0 -6.346 2.325 -2.256
31 HN7 H HN7 N N N 0 -4.435 0.836 -2.583
32 H1' H H1' N N N 0 -2.385 -0.881 1.915
33 HO1B H HO1B N N N 0 6.669 2.86 1.53
34 HO3B H HO3B N N N 0 4.072 3.357 -0.193
35 H2' H H2' N N N 0 -2.701 -3.111 1.484
36 H2'A H H2'A N N N 0 -3.201 -2.726 -0.193
37 HO2A H HO2A N N N 0 4.593 -2.238 0.637
38 H3' H H3' N N N 0 -1.039 -3.078 -1.041
39 HO3' H HO3' N N N 0 -1.339 -5.038 0.348
40 H4' H H4' N N N 0 0.142 -2.151 1.639
41 H5' H H5' N N N 0 1.632 -2.847 -0.31
42 H5'A H H5'A N N N 0 0.898 -1.534 -1.262