Chemical Components in the PDB

pdbe.org/chem
wwPDB
EMDataBank
spacer

PDBeChem : Atoms of Molecule

 Molecule : YD7

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 N1 N N1 N N N 0 3.65 -1.789 -0.311
2 N3 N N2 N Y N 0 -3.216 -0.37 -0.027
3 C4 C C1 N N N 0 6.38 4.067 -0.137
4 C5 C C2 N N N 0 6.065 5.018 1.019
5 C6 C C3 N N N 0 7.627 4.557 -0.876
6 C7 C C4 N N N 0 5.477 0.91 1.6
7 C8 C C5 R N N 0 2.785 -2.965 -0.184
8 C10 C C6 N N N 0 2.983 -2.87 -2.685
9 C13 C C7 N Y N 0 0.788 -1.567 -0.747
10 C15 C C8 N Y N 0 0.633 -3.094 1.09
11 C17 C C9 N Y N 0 -1.252 -1.726 0.504
12 C20 C C10 N Y N 0 -6.348 1.403 -0.424
13 C21 C C11 N Y N 0 -7.016 2.333 -1.154
14 C22 C C12 N N N 0 -9.325 3.333 -1.112
15 C24 C C13 N Y N 0 -4.699 -1.428 1.969
16 C26 C C14 N Y N 0 -0.515 -1.159 -0.534
17 C1 C C15 N N N 0 4.053 -1.128 0.792
18 C11 C C16 N N N 0 1.774 -2.0 -2.97
19 C12 C C17 N N N 0 1.587 -0.948 -1.875
20 C14 C C18 N Y N 0 1.356 -2.524 0.056
21 C16 C C19 N Y N 0 -0.67 -2.697 1.316
22 C18 C C20 N Y N 0 -2.651 -1.297 0.744
23 C19 C C21 N Y N 0 -4.464 0.014 0.186
24 C2 C C22 N N N 0 5.467 0.7 -0.43
25 C23 C C23 N Y N 0 -7.216 0.933 0.572
26 C25 C C24 N Y N 0 -3.398 -1.86 1.783
27 C3 C C25 N N N 0 5.443 1.945 0.467
28 C9 C C26 N N N 0 2.83 -3.778 -1.48
29 N2 N N3 N N N 0 4.848 -0.045 0.676
30 N4 N N4 N N N 0 -5.021 0.981 -0.634
31 N5 N N5 N Y N 0 -8.265 2.443 -0.631
32 N6 N N6 N Y N 0 -8.361 1.555 0.447
33 N7 N N7 N Y N 0 -5.195 -0.502 1.163
34 O1 O O1 N N N 0 3.699 -1.507 1.892
35 O2 O O2 N N N 0 6.617 2.755 0.377
36 H1 H H1 N N N 0 3.935 -1.489 -1.188
37 H5 H H5 N N N 0 5.885 6.019 0.627
38 H2 H H2 N N N 0 5.536 4.04 -0.826
39 H3 H H3 N N N 0 5.177 4.669 1.545
40 H4 H H4 N N N 0 6.909 5.045 1.708
41 H6 H H6 N N N 0 7.851 3.88 -1.7
42 H7 H H7 N N N 0 7.446 5.558 -1.268
43 H8 H H8 N N N 0 8.471 4.584 -0.187
44 H9 H H9 N N N 0 6.486 0.626 1.898
45 H10 H H10 N N N 0 4.846 1.173 2.449
46 H11 H H11 N N N 0 3.124 -3.58 0.649
47 H12 H H12 N N N 0 3.179 -3.488 -3.561
48 H13 H H13 N N N 0 3.844 -2.223 -2.523
49 H14 H H14 N N N 0 1.088 -3.846 1.718
50 H15 H H15 N N N 0 -6.625 2.885 -1.995
51 H16 H H16 N N N 0 -9.919 2.818 -1.867
52 H17 H H17 N N N 0 -9.966 3.618 -0.278
53 H18 H H18 N N N 0 -8.879 4.227 -1.549
54 H19 H H19 N N N 0 -5.304 -1.842 2.762
55 H20 H H20 N N N 0 -0.959 -0.405 -1.168
56 H21 H H21 N N N 0 1.912 -1.5 -3.929
57 H22 H H22 N N N 0 0.884 -2.628 -3.019
58 H23 H H23 N N N 0 1.047 -0.091 -2.279
59 H24 H H24 N N N 0 2.56 -0.629 -1.503
60 H25 H H25 N N N 0 -1.237 -3.14 2.122
61 H31 H H31 N N N 0 3.675 -4.467 -1.442
62 H26 H H26 N N N 0 4.826 0.785 -1.308
63 H27 H H27 N N N 0 6.473 0.359 -0.674
64 H28 H H28 N N N 0 -6.981 0.185 1.314
65 H29 H H29 N N N 0 -2.969 -2.614 2.426
66 H30 H H30 N N N 0 4.517 2.517 0.412
67 H33 H H33 N N N 0 -4.497 1.367 -1.354
68 H32 H H32 N N N 0 1.907 -4.35 -1.577