Chemical Components in the PDB

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PDBeChem : Atoms of Molecule

 Molecule : THP

Atoms of a chemical element, that composes a molecule

Total Number of Atoms: 41


Record Atom Name Symbol PDB Name Stereochemistry Is Aromatic Is Leaving Atom Charge X-Coordinate Y-Coordinate Z-Coordinate
1 P2 P P2 N N N 0 2.694 0.181 -3.289
2 O4P O O4P N N N 0 2.796 1.567 -2.78
3 O5P O O5P N N N 0 4.162 -0.358 -3.67
4 O6P O O6P N N N 0 1.757 0.158 -4.598
5 P1 P P1 N N N 0 -3.072 0.194 -1.973
6 O1P O O1P N N N 0 -2.106 1.046 -2.701
7 O2P O O2P N N N 0 -4.201 -0.33 -2.994
8 O3P O O3P N N N 0 -3.766 1.05 -0.799
9 O5' O O5* N N N 0 2.053 -0.761 -2.153
10 C5' C C5* N N N 0 0.758 -0.233 -1.859
11 C4' C C4* R N N 0 0.091 -1.088 -0.78
12 O4' O O4* N N N 0 0.807 -0.985 0.471
13 C3' C C3* S N N 0 -1.317 -0.537 -0.441
14 O3' O O3* N N N 0 -2.3 -1.065 -1.333
15 C2' C C2* N N N 0 -1.534 -1.067 0.997
16 C1' C C1* R N N 0 -0.111 -1.363 1.509
17 N1 N N1 N N N 0 0.154 -0.582 2.719
18 C2 C C2 N N N 0 0.095 0.761 2.671
19 O2 O O2 N N N 0 -0.178 1.311 1.623
20 N3 N N3 N N N 0 0.335 1.503 3.768
21 C4 C C4 N N N 0 0.635 0.907 4.94
22 O4 O O4 N N N 0 0.852 1.579 5.933
23 C5 C C5 N N N 0 0.705 -0.504 5.003
24 C5M C C5M N N N 0 1.043 -1.195 6.299
25 C6 C C6 N N N 0 0.46 -1.225 3.888
26 HOP5 H 5HOP N N N 0 4.509 0.232 -4.352
27 HOP6 H 6HOP N N N 0 1.717 -0.76 -4.897
28 HOP2 H 2HOP N N N 0 -4.638 0.453 -3.354
29 HOP3 H 3HOP N N N 0 -4.386 0.459 -0.351
30 H5'1 H 1H5* N N N 0 0.148 -0.245 -2.762
31 H5'2 H 2H5* N N N 0 0.857 0.791 -1.501
32 H4' H H4* N N N 0 0.029 -2.128 -1.1
33 H3' H H3* N N N 0 -1.323 0.552 -0.458
34 H2'1 H 1H2* N N N 0 -2.131 -1.979 0.981
35 H2'2 H 2H2* N N N 0 -2.012 -0.308 1.615
36 H1' H H1* N N N 0 -0.009 -2.427 1.725
37 H3 H H3 N N N 0 0.288 2.471 3.716
38 H51 H 1H5 N N N 0 1.206 -0.448 7.077
39 H52 H 2H5 N N N 0 0.219 -1.847 6.589
40 H53 H 3H5 N N N 0 1.948 -1.788 6.17
41 H6 H H6 N N N 0 0.505 -2.303 3.918