Chemical Components in the PDB

pdbe.org/chem
wwPDB
EMDataBank
spacer

PDBeChem : Atoms of Molecule

 Molecule : A2P

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 P1 P P1 N N N 0 2.638 -0.404 2.274
2 O1P O O1P N N N 0 3.273 -1.585 1.647
3 O2P O O2P N N N 0 3.697 0.321 3.246
4 O3P O O3P N N N 0 1.358 -0.873 3.13
5 P2 P P2 N N N 0 -0.842 -0.078 -5.412
6 O4P O O4P N N N 0 -1.159 -1.507 -5.196
7 O5P O O5P N N N 0 -2.04 0.619 -6.23
8 O6P O O6P N N N 0 0.525 0.046 -6.252
9 O5' O O5* N N N 0 -0.666 0.653 -3.988
10 C5' C C5* N N N 0 0.405 -0.008 -3.313
11 C4' C C4* R N N 0 0.625 0.641 -1.946
12 O4' O O4* N N N 0 -0.559 0.51 -1.13
13 C3' C C3* R N N 0 1.727 -0.105 -1.164
14 O3' O O3* N N N 0 2.978 0.574 -1.288
15 C2' C C2* R N N 0 1.236 -0.073 0.302
16 O2' O O2* N N N 0 2.17 0.625 1.128
17 C1' C C1* R N N 0 -0.106 0.686 0.229
18 N9 N N9 N Y N 0 -1.071 0.107 1.167
19 C8 C C8 N Y N 0 -1.93 -0.919 0.91
20 N7 N N7 N Y N 0 -2.644 -1.177 1.967
21 C5 C C5 N Y N 0 -2.286 -0.338 2.968
22 C6 C C6 N Y N 0 -2.706 -0.148 4.296
23 N6 N N6 N N N 0 -3.7 -0.939 4.844
24 N1 N N1 N Y N 0 -2.122 0.805 5.014
25 C2 C C2 N Y N 0 -1.173 1.565 4.499
26 N3 N N3 N Y N 0 -0.752 1.427 3.26
27 C4 C C4 N Y N 0 -1.277 0.5 2.465
28 HOP2 H 2HOP N N N 0 3.951 -0.328 3.916
29 HOP3 H 3HOP N N N 0 0.975 -0.075 3.52
30 HOP5 H 5HOP N N N 0 -2.111 0.153 -7.074
31 HOP6 H 6HOP N N N 0 0.695 0.991 -6.37
32 H5'1 H 1H5* N N N 0 1.315 0.076 -3.907
33 H5'2 H 2H5* N N N 0 0.155 -1.06 -3.179
34 H4' H H4* N N N 0 0.889 1.692 -2.064
35 H3' H H3* N N N 0 1.816 -1.133 -1.516
36 HO3' H *HO3 N N N 0 3.203 0.576 -2.229
37 H2' H H2* N N N 0 1.081 -1.085 0.675
38 H1' H H1* N N N 0 0.043 1.744 0.445
39 H8 H H8 N N N 0 -2.006 -1.441 -0.032
40 HN61 H 1HN6 N N N 0 -3.978 -0.801 5.763
41 HN62 H 2HN6 N N N 0 -4.121 -1.63 4.308
42 H2 H H2 N N N 0 -0.726 2.328 5.119