Chemical Components in the PDB

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PDBeChem : Atoms of Molecule

 Molecule : JYP

Atoms of a chemical element, that composes a molecule

Total Number of Atoms: 68


Record Atom Name Symbol PDB Name Stereochemistry Is Aromatic Is Leaving Atom Charge X-Coordinate Y-Coordinate Z-Coordinate
1 C1 C C1 N Y N 0 7.494 -0.91 -0.448
2 N1 N N1 N Y N 0 6.304 -0.424 -0.729
3 C2 C C2 N Y N 0 5.751 0.505 0.045
4 C3 C C3 N Y N 0 6.457 0.963 1.171
5 C4 C C4 N Y N 0 7.724 0.414 1.428
6 N2 N N2 N Y N 0 8.194 -0.511 0.598
7 N3 N N3 N N N 0 8.466 0.826 2.522
8 N4 N N4 N Y N 0 5.68 1.893 1.777
9 C5 C C5 N Y N 0 4.571 2.032 1.111
10 N5 N N5 N Y N 0 4.567 1.197 0.034
11 C6 C C6 R N N 0 3.494 1.062 -0.955
12 C7 C C7 R N N 0 2.513 -0.054 -0.535
13 C8 C C8 S N N 0 1.128 0.484 -0.958
14 C9 C C9 R N N 0 1.436 1.863 -1.583
15 O1 O O1 N N N 0 2.692 2.263 -0.993
16 C10 C C10 N N N 0 0.337 2.867 -1.228
17 O2 O O2 N N N 0 0.58 4.099 -1.909
18 O3 O O3 N N N 0 0.278 0.63 0.182
19 C11 C C11 R N N 0 -1.112 0.456 -0.103
20 C12 C C12 S N N 0 -1.939 0.874 1.115
21 C13 C C13 R N N 0 -3.422 0.628 0.824
22 C14 C C14 S N N 0 -3.623 -0.847 0.464
23 C15 C C15 S N N 0 -2.73 -1.2 -0.729
24 O4 O O4 N N N 0 -1.368 -0.918 -0.402
25 C16 C C16 N N N 0 -2.88 -2.687 -1.056
26 O5 O O5 N N N 0 -2.138 -2.991 -2.239
27 O6 O O6 N N N 0 -4.991 -1.074 0.122
28 P1 P P1 N N N 0 -5.936 -2.105 0.919
29 O7 O O7 N N N 0 -7.365 -2.203 0.184
30 O8 O O8 N N N 0 -5.3 -3.441 0.942
31 O9 O O9 N N N 0 -6.144 -1.584 2.429
32 O10 O O10 N N N 0 -3.837 1.447 -0.271
33 P2 P P2 N N N 0 -5.004 2.55 -0.149
34 O11 O O11 N N N 0 -5.115 3.37 -1.53
35 O12 O O12 N N N 0 -6.405 1.817 0.154
36 O13 O O13 N N N 0 -4.687 3.483 0.955
37 O14 O O14 N N N 0 -1.729 2.263 1.38
38 O15 O O15 N N N 0 2.81 -1.269 -1.227
39 P3 P P3 N N N 0 3.174 -2.642 -0.471
40 O16 O O16 N N N 0 4.564 -2.466 0.323
41 O17 O O17 N N N 0 2.098 -2.979 0.487
42 O18 O O18 N N N 0 3.321 -3.827 -1.552
43 H1 H H1 N N N 0 7.912 -1.667 -1.096
44 H2 H H2 N N N 0 8.111 1.502 3.121
45 H3 H H3 N N N 0 9.34 0.44 2.689
46 H4 H H4 N N N 0 3.771 2.709 1.373
47 H5 H H5 N N N 0 3.909 0.852 -1.94
48 H6 H H6 N N N 0 2.549 -0.21 0.543
49 H7 H H7 N N N 0 0.669 -0.177 -1.693
50 H8 H H8 N N N 0 1.534 1.776 -2.665
51 H9 H H9 N N N 0 -0.631 2.468 -1.531
52 H10 H H10 N N N 0 0.338 3.04 -0.152
53 H11 H H11 N N N 0 -0.079 4.784 -1.73
54 H12 H H12 N N N 0 -1.387 1.072 -0.959
55 H13 H H13 N N N 0 -1.635 0.287 1.981
56 H14 H H14 N N N 0 -4.013 0.872 1.707
57 H15 H H15 N N N 0 -3.353 -1.47 1.317
58 H16 H H16 N N N 0 -3.027 -0.606 -1.593
59 H17 H H17 N N N 0 -2.499 -3.282 -0.226
60 H18 H H18 N N N 0 -3.932 -2.92 -1.217
61 H19 H H19 N N N 0 -2.187 -3.919 -2.507
62 H20 H H20 N N N 0 -7.987 -2.807 0.612
63 H21 H H21 N N N 0 -6.557 -0.712 2.491
64 H22 H H22 N N N 0 -5.8 4.052 -1.528
65 H23 H H23 N N N 0 -6.677 1.189 -0.529
66 H24 H H24 N N N 0 -0.808 2.492 1.569
67 H25 H H25 N N N 0 5.315 -2.244 -0.244
68 H26 H H26 N N N 0 3.54 -4.686 -1.166