Chemical Components in the PDB

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PDBeChem : Atoms of Molecule

 Molecule : UDN

Atoms of a chemical element, that composes a molecule

Total Number of Atoms: 68


Record Atom Name Symbol PDB Name Stereochemistry Is Aromatic Is Leaving Atom Charge X-Coordinate Y-Coordinate Z-Coordinate
1 C1' C C1 S N N 0 4.859 0.057 -0.554
2 C1D C C14 R N N 0 -5.588 0.15 -0.25
3 C2 C C10 N N N 0 -5.879 -1.853 1.096
4 C2' C C2 R N N 0 5.578 -1.263 -0.264
5 C2D C C15 R N N 0 -6.245 1.108 0.775
6 C3' C C3 R N N 0 5.218 -1.732 1.149
7 C3D C C16 S N N 0 -5.175 2.23 0.859
8 C4 C C11 N N N 0 -7.017 -3.739 0.317
9 C4' C C4 R N N 0 5.591 -0.635 2.15
10 C4D C C17 S N N 0 -3.859 1.442 0.68
11 C5 C C12 N N N 0 -7.248 -3.077 -0.914
12 C5' C C5 R N N 0 4.871 0.661 1.767
13 C5D C C18 N N N 0 -2.888 2.243 -0.189
14 C6 C C13 N N N 0 -6.779 -1.822 -1.083
15 C6' C C6 N N N 0 5.285 1.778 2.728
16 C7' C C7 N N N 0 5.968 -3.312 -1.523
17 C8' C C8 N N N 0 5.536 -4.352 -2.525
18 CB C C9 N N N 0 3.346 -0.166 -0.511
19 H1 H H1 N N N 0 5.145 0.418 -1.542
20 H10 H H10 N N N 0 6.414 -4.767 -3.019
21 H11 H H11 N N N 0 4.297 -2.195 -1.677
22 H12 H H12 N N N 0 3.077 -0.968 -1.199
23 H13 H H13 N N N 0 3.048 -0.441 0.501
24 H14 H H14 N N N 0 5.762 -3.279 2.337
25 H15 H H15 N N N 0 7.311 0.261 2.733
26 H16 H H16 N N N 0 4.738 3.706 3.015
27 H17 H H17 N N N 0 -6.174 -3.55 2.137
28 H18 H H18 N N N 0 -7.792 -3.57 -1.706
29 H19 H H19 N N N 0 -6.949 -1.3 -2.013
30 H2 H H2 N N N 0 6.656 -1.114 -0.335
31 H20 H H20 N N N 0 -5.781 0.492 -1.267
32 H21 H H21 N N N 0 -6.379 0.619 1.74
33 H22 H H22 N N N 0 -7.934 2.22 0.891
34 H23 H H23 N N N 0 -5.206 2.724 1.831
35 H24 H H24 N N N 0 -3.41 1.247 1.654
36 H25 H H25 N N N 0 -6.199 3.636 -0.177
37 H26 H H26 N N N 0 -3.299 2.345 -1.193
38 H27 H H27 N N N 0 -2.743 3.232 0.246
39 H28 H H28 N N N 0 -0.945 1.262 -3.016
40 H29 H H29 N N N 0 2.557 1.013 -3.161
41 H3 H H3 N N N 0 4.147 -1.931 1.205
42 H4 H H4 N N N 0 5.288 -0.938 3.153
43 H5 H H5 N N N 0 3.793 0.51 1.828
44 H6 H H6 N N N 0 5.095 1.463 3.754
45 H7 H H7 N N N 0 6.347 1.989 2.603
46 H8 H H8 N N N 0 4.997 -5.148 -2.012
47 H9 H H9 N N N 0 4.884 -3.892 -3.267
48 N1 N N2 N N N 0 -6.092 -1.213 -0.069
49 N2' N N1 N N N 0 5.158 -2.273 -1.238
50 N3 N N3 N N N 0 -6.336 -3.103 1.291
51 O1A O O12 N N N 0 -0.73 2.133 -2.656
52 O1B O O15 N N N 0 2.947 2.483 -0.142
53 O2 O O6 N N N 0 -5.265 -1.293 1.984
54 O2' O O8 N N N 0 -7.487 1.616 0.282
55 O2A O O13 N N N 0 -0.062 3.499 -0.641
56 O2B O O16 N N N 0 2.829 1.702 -2.539
57 O3' O O1 N N N 0 5.942 -2.925 1.456
58 O3A O O14 N N N 0 0.902 1.174 -0.83
59 O3D O O10 N N N 0 -5.347 3.178 -0.196
60 O4 O O7 N N N 0 -7.43 -4.871 0.493
61 O4' O O2 N N N 0 7.003 -0.422 2.122
62 O4D O O9 N N N 0 -4.181 0.204 0.035
63 O5' O O3 N N N 0 5.226 1.025 0.432
64 O5D O O11 N N N 0 -1.634 1.562 -0.254
65 O6' O O4 N N N 0 4.528 2.956 2.443
66 O7' O O5 N N N 0 7.045 -3.41 -0.973
67 PA P P1 N N N 0 -0.374 2.122 -1.086
68 PB P P2 N N N 0 2.491 1.367 -1.001