Chemical Components in the PDB

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PDBeChem : Atoms of Molecule

 Molecule : 8JD

Atoms of a chemical element, that composes a molecule

Total Number of Atoms: 85


Record Atom Name Symbol PDB Name Stereochemistry Is Aromatic Is Leaving Atom Charge X-Coordinate Y-Coordinate Z-Coordinate
1 N6A N N1 N N N 0 8.481 6.421 2.177
2 C6A C C1 N Y N 0 8.251 5.724 1.003
3 N1A N N2 N Y N 0 8.413 6.31 -0.178
4 C2A C C2 N Y N 0 8.196 5.653 -1.303
5 N3A N N3 N Y N 0 7.812 4.395 -1.324
6 C4A C C3 N Y N 0 7.624 3.725 -0.191
7 C5A C C4 N Y N 0 7.847 4.378 1.033
8 N9A N N4 N Y N 0 7.239 2.448 0.127
9 N7A N N5 N Y N 0 7.594 3.481 2.016
10 C8A C C5 N Y N 0 7.228 2.35 1.487
11 C1M C C6 N N N 0 -14.824 5.677 0.745
12 CP C C7 N N N 0 -13.826 4.625 1.233
13 O3X O O1 N N N 0 7.868 -1.347 -2.673
14 S1 S S1 N N N 0 -12.794 4.08 -0.155
15 N4 N N6 N N N 0 -9.857 1.304 0.168
16 C5 C C8 N N N 0 -8.931 0.671 -0.579
17 O5 O O2 N N N 0 -8.832 0.919 -1.762
18 C6 C C9 N N N 0 -8.017 -0.346 0.056
19 C7 C C10 N N N 0 -7.068 -0.91 -1.003
20 N8 N N7 N N N 0 -6.18 -1.898 -0.386
21 C9 C C11 N N N 0 -5.253 -2.531 -1.132
22 O9 O O3 N N N 0 -5.215 -2.353 -2.331
23 C13 C C12 N N N 0 -2.965 -1.428 0.173
24 C11 C C13 N N N 0 -2.879 -2.812 -0.475
25 C14 C C14 N N N 0 -2.379 -2.671 -1.914
26 C12 C C15 N N N 0 -1.907 -3.687 0.32
27 P1A P P1 N N N 0 3.553 -3.139 0.825
28 O2A O O4 N N N 0 3.842 -4.458 0.22
29 O1A O O5 N N N 0 4.03 -3.137 2.363
30 O3A O O6 N N N 0 1.97 -2.851 0.753
31 O5X O O7 N N N 0 4.344 -1.993 0.017
32 C4X C C16 R N N 0 6.18 -0.79 -0.994
33 O4X O O8 N N N 0 6.044 0.404 -0.193
34 C1X C C17 R N N 0 6.9 1.383 -0.821
35 C2X C C18 R N N 0 8.168 0.599 -1.224
36 O2X O O9 N N N 0 8.666 1.063 -2.48
37 C3X C C19 S N N 0 7.684 -0.864 -1.341
38 C5X C C20 N N N 0 5.757 -2.023 -0.193
39 P2A P P2 N N N 0 0.658 -3.73 1.066
40 O4A O O10 N N N 0 0.863 -5.112 0.579
41 O5A O O11 N N N 0 0.396 -3.754 2.655
42 O6A O O12 N N N 0 -0.613 -3.08 0.322
43 C10 C C21 R N N 0 -4.264 -3.461 -0.477
44 O10 O O13 N N N 0 -4.672 -3.719 0.868
45 C3 C C22 N N N 0 -10.745 2.292 -0.45
46 C2 C C23 N N N 0 -11.694 2.856 0.609
47 H1 H H1 N N N 0 8.763 7.348 2.143
48 H2 H H2 N N N 0 8.355 5.983 3.033
49 H3 H H3 N N N 0 8.34 6.168 -2.242
50 H4 H H4 N N N 0 6.967 1.462 2.042
51 H5 H H5 N N N 0 -14.282 6.53 0.338
52 H6 H H6 N N N 0 -15.457 5.245 -0.03
53 H7 H H7 N N N 0 -15.444 6.004 1.579
54 H8 H H8 N N N 0 -13.193 5.057 2.008
55 H9 H H9 N N N 0 -14.368 3.771 1.641
56 H10 H H10 N N N 0 8.794 -1.414 -2.943
57 H11 H H11 N N N 0 -9.936 1.105 1.114
58 H12 H H12 N N N 0 -7.437 0.131 0.846
59 H13 H H13 N N N 0 -8.612 -1.155 0.479
60 H14 H H14 N N N 0 -7.647 -1.387 -1.794
61 H15 H H15 N N N 0 -6.473 -0.101 -1.426
62 H16 H H16 N N N 0 -6.258 -2.097 0.561
63 H17 H H17 N N N 0 -3.321 -1.528 1.198
64 H18 H H18 N N N 0 -1.978 -0.965 0.175
65 H19 H H19 N N N 0 -3.657 -0.804 -0.393
66 H20 H H20 N N N 0 -3.028 -1.985 -2.459
67 H21 H H21 N N N 0 -1.361 -2.281 -1.908
68 H22 H H22 N N N 0 -2.391 -3.646 -2.4
69 H23 H H23 N N N 0 -2.263 -3.787 1.345
70 H24 H H24 N N N 0 -1.845 -4.672 -0.141
71 H25 H H25 N N N 0 3.87 -2.302 2.823
72 H26 H H26 N N N 0 5.585 -0.706 -1.903
73 H27 H H27 N N N 0 6.414 1.801 -1.702
74 H28 H H28 N N N 0 8.934 0.689 -0.454
75 H29 H H29 N N N 0 9.462 0.604 -2.782
76 H30 H H30 N N N 0 8.21 -1.498 -0.627
77 H31 H H31 N N N 0 6.267 -2.023 0.77
78 H32 H H32 N N N 0 6.023 -2.924 -0.746
79 H33 H H33 N N N 0 0.253 -2.881 3.043
80 H34 H H34 N N N 0 -4.225 -4.398 -1.031
81 H35 H H35 N N N 0 -4.729 -2.927 1.42
82 H36 H H36 N N N 0 -10.15 3.101 -0.873
83 H37 H H37 N N N 0 -11.325 1.815 -1.241
84 H38 H H38 N N N 0 -11.115 3.332 1.4
85 H39 H H39 N N N 0 -12.29 2.047 1.032