Chemical Components in the PDB

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PDBeChem : Atoms of Molecule

 Molecule : DND

Atoms of a chemical element, that composes a molecule

Total Number of Atoms: 71


Record Atom Name Symbol PDB Name Stereochemistry Is Aromatic Is Leaving Atom Charge X-Coordinate Y-Coordinate Z-Coordinate
1 PN P PN N N N 0 1.491 -2.779 -1.073
2 O11 O O11 N N N 0 1.036 -3.219 -2.411
3 O12 O O12 N N N 0 2.394 -3.934 -0.407
4 O3P O O3P N N N 0 0.211 -2.493 -0.139
5 O5D O O5D N N N 0 2.362 -1.433 -1.217
6 C5D C C5D N N N 0 3.505 -1.333 -2.068
7 C4D C C4D R N N 0 4.094 0.075 -1.969
8 O4D O O4D N N N 0 4.624 0.292 -0.65
9 C3D C C3D S N N 0 5.262 0.226 -2.962
10 O3D O O3D N N N 0 4.991 1.272 -3.898
11 C2D C C2D R N N 0 6.473 0.598 -2.071
12 O2D O O2D N N N 0 7.27 1.609 -2.69
13 C1D C C1D R N N 0 5.782 1.142 -0.795
14 N1N N N1N N Y N 1 6.666 1.012 0.366
15 C6N C C6N N Y N 0 6.84 -0.177 0.908
16 C5N C C5N N Y N 0 7.666 -0.348 2.005
17 C4N C C4N N Y N 0 8.318 0.749 2.539
18 C3N C C3N N Y N 0 8.113 1.999 1.941
19 C2N C C2N N Y N 0 7.268 2.086 0.834
20 C7N C C7N N N N 0 8.784 3.204 2.471
21 O7N O O7N N N N 0 8.599 4.283 1.944
22 O8N O O8N N N N 0 9.6 3.106 3.538
23 PA P PA N N N 0 -1.164 -3.279 0.146
24 O13 O O13 N N N 0 -1.68 -3.846 -1.121
25 O14 O O14 N N N 0 -0.895 -4.47 1.196
26 O5B O O5B N N N 0 -2.249 -2.259 0.758
27 C5B C C5B N N N 0 -3.604 -2.63 1.02
28 C4B C C4B R N N 0 -4.359 -1.429 1.596
29 O4B O O4B N N N 0 -4.54 -0.416 0.583
30 C3B C C3B S N N 0 -5.791 -1.84 2.004
31 O3B O O3B N N N 0 -5.858 -2.095 3.408
32 C2B C C2B R N N 0 -6.653 -0.611 1.636
33 O2B O O2B N N N 0 -7.278 -0.071 2.802
34 C1B C C1B R N N 0 -5.639 0.396 1.049
35 N9A N N9A N Y N 0 -6.239 1.131 -0.067
36 C4A C C4A N Y N 0 -6.963 2.293 0.022
37 N3A N N3A N Y N 0 -7.343 3.088 1.017
38 C2A C C2A N Y N 0 -8.055 4.169 0.777
39 N1A N N1A N Y N 0 -8.424 4.519 -0.441
40 C6A C C6A N Y N 0 -8.09 3.787 -1.499
41 C5A C C5A N Y N 0 -7.33 2.623 -1.294
42 N7A N N7A N Y N 0 -6.822 1.662 -2.103
43 C8A C C8A N Y N 0 -6.176 0.789 -1.385
44 N6A N N6A N N N 0 -8.483 4.161 -2.772
45 H1 H H1 N N N 0 2.727 -3.713 0.474
46 H2 H H2 N N N 0 4.254 -2.063 -1.758
47 H3 H H3 N N N 0 3.21 -1.532 -3.099
48 H4 H H4 N N N 0 3.323 0.815 -2.184
49 H5 H H5 N N N 0 5.444 -0.714 -3.484
50 H6 H H6 N N N 0 5.694 1.41 -4.548
51 H7 H H7 N N N 0 7.073 -0.283 -1.844
52 H8 H H8 N N N 0 7.651 1.345 -3.539
53 H9 H H9 N N N 0 5.48 2.18 -0.935
54 H10 H H10 N N N 0 6.33 -1.032 0.489
55 H11 H H11 N N N 0 7.8 -1.327 2.44
56 H12 H H12 N N N 0 8.968 0.645 3.396
57 H13 H H13 N N N 0 7.103 3.042 0.36
58 H14 H H14 N N N 0 10.016 3.922 3.848
59 H15 H H15 N N N 0 -0.555 -4.171 2.05
60 H16 H H16 N N N 0 -4.081 -2.947 0.093
61 H17 H H17 N N N 0 -3.624 -3.45 1.738
62 H18 H H18 N N N 0 -3.822 -1.02 2.452
63 H19 H H19 N N N 0 -6.112 -2.717 1.442
64 H20 H H20 N N N 0 -6.735 -2.357 3.72
65 H21 H H21 N N N 0 -7.402 -0.88 0.891
66 H22 H H22 N N N 0 -7.88 -0.684 3.245
67 H23 H H23 N N N 0 -5.3 1.087 1.821
68 H24 H H24 N N N 0 -8.347 4.793 1.609
69 H25 H H25 N N N 0 -5.671 -0.082 -1.776
70 H26 H H26 N N N 0 -9.007 4.967 -2.9
71 H27 H H27 N N N 0 -8.233 3.618 -3.536