Chemical Components in the PDB

pdbe.org/chem
wwPDB
EMDataBank
spacer

PDBeChem : Atoms of Molecule

 Molecule : DA

Atoms of a chemical element, that composes a molecule

Total Number of Atoms: 36


Record Atom Name Symbol PDB Name Stereochemistry Is Aromatic Is Leaving Atom Charge X-Coordinate Y-Coordinate Z-Coordinate
1 OP3 O O3P N N Y 0 1.845 -1.282 -5.339
2 P P P N N N 0 0.934 -0.156 -4.636
3 OP1 O O1P N N N 0 1.781 0.996 -4.255
4 OP2 O O2P N N N 0 -0.204 0.331 -5.665
5 O5' O O5* N N N 0 0.241 -0.771 -3.32
6 C5' C C5* N N N 0 -0.549 0.27 -2.744
7 C4' C C4* R N N 0 -1.239 -0.251 -1.482
8 O4' O O4* N N N 0 -0.267 -0.564 -0.458
9 C3' C C3* S N N 0 -2.105 0.859 -0.835
10 O3' O O3* N N N 0 -3.409 0.895 -1.418
11 C2' C C2* N N N 0 -2.173 0.398 0.64
12 C1' C C1* R N N 0 -0.965 -0.545 0.797
13 N9 N N9 N Y N 0 -0.078 -0.047 1.852
14 C8 C C8 N Y N 0 0.962 0.817 1.689
15 N7 N N7 N Y N 0 1.535 1.044 2.835
16 C5 C C5 N Y N 0 0.897 0.346 3.805
17 C6 C C6 N Y N 0 1.069 0.196 5.191
18 N6 N N6 N N N 0 2.079 0.869 5.856
19 N1 N N1 N Y N 0 0.236 -0.603 5.85
20 C2 C C2 N Y N 0 -0.729 -1.249 5.224
21 N3 N N3 N Y N 0 -0.925 -1.144 3.927
22 C4 C C4 N Y N 0 -0.142 -0.368 3.184
23 HOP3 H 3HOP N N N 0 2.241 -0.873 -6.121
24 HOP2 H 2HOP N N N 0 -0.732 -0.447 -5.887
25 H5' H 1H5* N N N 0 -1.302 0.594 -3.463
26 H5'' H 2H5* N N N 0 0.092 1.112 -2.486
27 H4' H H4* N N N 0 -1.846 -1.126 -1.712
28 H3' H H3* N N N 0 -1.617 1.83 -0.918
29 HO3' H H3T N N Y 0 -3.924 1.538 -0.913
30 H2' H 1H2* N N N 0 -3.103 -0.136 0.831
31 H2'' H 2H2* N N N 0 -2.079 1.253 1.311
32 H1' H H1* N N N 0 -1.309 -1.549 1.046
33 H8 H H8 N N N 0 1.266 1.25 0.748
34 H61 H 1H6 N N N 0 2.185 0.761 6.814
35 H62 H 2H6 N N N 0 2.683 1.447 5.363
36 H2 H H2 N N N 0 -1.383 -1.889 5.798