Chemical Components in the PDB

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PDBeChem : Atoms of Molecule

 Molecule : DJF

Atoms of a chemical element, that composes a molecule

Total Number of Atoms: 61


Record Atom Name Symbol PDB Name Stereochemistry Is Aromatic Is Leaving Atom Charge X-Coordinate Y-Coordinate Z-Coordinate
1 B B B N N N -1 0.974 1.593 -1.751
2 C1' C C1' R N N 0 -0.254 -1.198 -0.17
3 C10 C C10 N N N 0 1.508 2.952 -3.455
4 C11 C C11 N Y N 0 2.286 3.475 -2.27
5 C12 C C12 N Y N 0 1.969 2.652 -1.199
6 C13 C C13 N Y N 0 3.165 4.523 -2.101
7 C14 C C14 N Y N 0 3.729 4.758 -0.859
8 C15 C C15 N Y N 0 3.413 3.944 0.212
9 C16 C C16 N Y N 0 2.529 2.886 0.043
10 C18 C C18 N N N 0 2.834 2.386 2.347
11 C19 C C19 N N N 0 2.364 1.384 3.403
12 C2 C C2 N Y N 0 3.457 -3.688 0.249
13 C2' C C2' R N N 0 0.07 -0.432 -1.471
14 C20 C C20 N N N 0 3.025 1.708 4.744
15 C3' C C3' S N N 0 -1.044 0.653 -1.551
16 C4 C C4 N Y N 0 1.241 -3.24 -0.168
17 C4' C C4' R N N 0 -1.895 0.401 -0.288
18 C5 C C5 N Y N 0 1.026 -4.603 -0.432
19 C5' C C5' N N N 0 -3.377 0.637 -0.589
20 C6 C C6 N Y N 0 2.121 -5.479 -0.33
21 C8 C C8 N Y N 0 -0.873 -3.589 -0.687
22 H1' H H1' N N N 0 0.323 -0.793 0.661
23 H10 H H10 N N N 0 2.143 2.934 -4.34
24 H10A H H10A N N N 0 0.635 3.579 -3.634
25 H13 H H13 N N N 0 3.413 5.16 -2.936
26 H14 H H14 N N N 0 4.417 5.579 -0.727
27 H15 H H15 N N N 0 3.853 4.13 1.18
28 H18 H H18 N N N 0 3.917 2.323 2.243
29 H18A H H18A N N N 0 2.557 3.395 2.655
30 H19 H H19 N N N 0 1.28 1.447 3.507
31 H19A H H19A N N N 0 2.641 0.375 3.095
32 H2 H H2 N N N 0 4.436 -3.323 0.522
33 H2' H H2' N N N 0 0.125 -1.079 -2.347
34 H20 H H20 N N N 0 4.108 1.644 4.64
35 H20A H H20A N N N 0 2.748 2.716 5.052
36 H3' H H3' N N N 0 -1.614 0.621 -2.479
37 H4' H H4' N N N 0 -1.566 1.046 0.526
38 H5' H H5' N N N 0 -3.509 1.638 -1.0
39 H5'A H H5'A N N N 0 -3.722 -0.101 -1.313
40 H8 H H8 N N N 0 -1.919 -3.415 -0.89
41 HN6 H HN6 N N N 0 2.733 -7.427 -0.506
42 HN6A H HN6A N N N 0 1.101 -7.186 -0.827
43 HO21 H HO21 N N N 0 2.966 0.916 6.607
44 HOP1 H HOP1 N N N 0 -7.184 0.723 2.309
45 HOP3 H HOP3 N N N 0 -6.243 -1.362 0.133
46 N1 N N1 N Y N 0 3.304 -4.978 0.01
47 N3 N N3 N Y N 0 2.461 -2.831 0.166
48 N6 N N6 N N N 0 1.97 -6.832 -0.579
49 N7 N N7 N Y N 0 -0.284 -4.748 -0.742
50 N9 N N9 N Y N 0 0.026 -2.626 -0.337
51 O1 O O1 N N N 0 1.095 1.616 -3.116
52 O17 O O17 N N N 0 2.216 2.084 1.094
53 O2' O O2' N N N 0 1.27 0.345 -1.262
54 O21 O O21 N N N 0 2.586 0.771 5.73
55 O3' O O3' N N N 0 -0.312 1.887 -1.375
56 O4' O O4' N N N 0 -1.665 -0.985 0.045
57 O5' O O5' N N N 0 -4.134 0.512 0.616
58 OP1 O OP1 N N N 0 -6.229 0.619 2.201
59 OP2 O OP2 N N N 0 -6.095 2.015 0.102
60 OP3 O OP3 N N Y 0 -6.438 -0.469 -0.184
61 P P P N N N 0 -5.732 0.698 0.671