Chemical Components in the PDB

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PDBeChem : Atoms of Molecule

 Molecule : PRD

Atoms of a chemical element, that composes a molecule

Total Number of Atoms: 45


Record Atom Name Symbol PDB Name Stereochemistry Is Aromatic Is Leaving Atom Charge X-Coordinate Y-Coordinate Z-Coordinate
1 C4A C C4A N Y N 0 -0.16 -0.428 -2.917
2 C8A C C8A N Y N 0 -0.475 0.95 -2.848
3 N1' N N1* N Y N 0 -0.252 1.712 -3.929
4 N8' N N8* N Y N 0 -0.979 1.463 -1.725
5 C7B C C7* N Y N 0 -1.197 0.716 -0.667
6 C5B C C5* N Y N 0 -0.379 -1.24 -1.798
7 C6B C C6* N Y N 0 -0.911 -0.65 -0.663
8 N6' N N6* R N N 0 -1.154 -1.417 0.481
9 C61 C C61 N N N 0 -0.852 -2.85 0.48
10 C4B C C4* N Y N 0 0.375 -0.941 -4.124
11 N4' N N4* N N N 0 0.698 -2.276 -4.243
12 N3' N N3* N Y N 0 0.557 -0.104 -5.136
13 C2B C C2* N Y N 0 0.248 1.184 -5.03
14 N2' N N2* N N N 0 0.462 2.007 -6.12
15 C7' C C7' N N N 0 -1.71 -0.786 1.681
16 C1' C C1' N Y N 0 -0.587 -0.294 2.556
17 C2' C C2' N Y N 0 -0.87 0.341 3.756
18 C3' C C3' N Y N 0 0.163 0.796 4.561
19 C4' C C4' N Y N 0 1.475 0.614 4.169
20 C5' C C5' N Y N 0 1.758 -0.022 2.969
21 C6' C C6' N Y N 0 0.724 -0.471 2.161
22 HC61 H 1HC6 N N N 0 -1.105 -3.276 1.451
23 O2' O O2' N N N 0 -2.162 0.52 4.142
24 C21 C C21 N N N 0 -2.127 1.196 5.4
25 O5' O O5' N N N 0 3.05 -0.201 2.583
26 C51 C C51 N N N 0 3.869 0.365 3.608
27 H7' H H7* N N N 0 -1.607 1.17 0.222
28 HC62 H 2HC6 N N N 0 -1.436 -3.344 -0.296
29 HC63 H 3HC6 N N N 0 0.21 -2.998 0.285
30 H5' H H5* N N N 0 -0.145 -2.294 -1.82
31 HN41 H 1HN4 N N N 0 1.064 -2.614 -5.076
32 HN42 H 2HN4 N N N 0 0.559 -2.877 -3.495
33 HN21 H 1HN2 N N N 0 0.829 1.64 -6.94
34 HN22 H 2HN2 N N N 0 0.245 2.95 -6.066
35 HC71 H 1HC7 N N N 0 -2.307 -1.515 2.23
36 HC72 H 2HC7 N N N 0 -2.34 0.053 1.39
37 HC3' H HC3' N N N 0 -0.057 1.291 5.495
38 HC4' H HC4' N N N 0 2.28 0.967 4.796
39 HC6' H HC6' N N N 0 0.945 -0.966 1.227
40 HC21 H 1HC2 N N N 0 -3.145 1.362 5.752
41 HC22 H 2HC2 N N N 0 -1.587 0.586 6.125
42 HC23 H 3HC2 N N N 0 -1.621 2.154 5.284
43 HC51 H 1HC5 N N N 0 4.919 0.245 3.341
44 HC52 H 2HC5 N N N 0 3.64 1.426 3.711
45 HC53 H 3HC5 N N N 0 3.674 -0.142 4.552