Chemical Components in the PDB

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PDBeChem : Atoms of Molecule

 Molecule : VDX

Atoms of a chemical element, that composes a molecule

Total Number of Atoms: 74


Record Atom Name Symbol PDB Name Stereochemistry Is Aromatic Is Leaving Atom Charge X-Coordinate Y-Coordinate Z-Coordinate
1 O2 O O2 N N N 0 -1.26 1.799 -7.708
2 O3 O O3 N N N 0 -2.818 0.819 6.766
3 C1 C C1 S N N 0 -2.455 -0.546 -5.027
4 C2 C C2 N N N 0 -2.317 0.041 -6.435
5 C3 C C3 R N N 0 -1.276 1.161 -6.429
6 C4 C C4 N N N 0 0.109 0.58 -6.132
7 C5 C C5 N N N 0 0.05 -0.138 -4.799
8 C6 C C6 N N N 0 0.998 0.042 -3.856
9 C7 C C7 N N N 0 0.906 -0.67 -2.58
10 C8 C C8 N N N 0 1.842 -0.492 -1.648
11 C9 C C9 N N N 0 3.03 0.437 -1.853
12 C10 C C10 N N N 0 -1.092 -1.05 -4.585
13 C11 C C11 N N N 0 3.181 1.389 -0.668
14 C12 C C12 N N N 0 3.123 0.642 0.674
15 C13 C C13 R N N 0 1.801 -0.074 0.756
16 C17 C C17 R N N 0 1.445 -0.822 2.031
17 C14 C C14 S N N 0 1.801 -1.194 -0.324
18 C15 C C15 N N N 0 0.51 -1.941 0.018
19 C16 C C16 N N N 0 0.55 -2.003 1.571
20 C18 C C18 N N N 0 0.674 0.903 0.415
21 C19 C C19 N N N 0 -0.938 -2.25 -4.026
22 C20 C C20 R N N 0 0.672 0.09 2.985
23 C21 C C21 N N N 0 1.548 1.283 3.37
24 C25 C C25 N N N 0 -1.632 0.351 7.411
25 C22 C C22 N N N 0 0.293 -0.692 4.244
26 C23 C C23 N N N 0 -0.479 0.22 5.198
27 C24 C C24 N N N 0 -0.858 -0.561 6.457
28 C26 C C26 N N N 0 -2.01 -0.43 8.67
29 C27 C C27 N N N 0 -0.756 1.545 7.796
30 O1 O O1 N N N 0 -2.916 0.463 -4.127
31 HO2 H HO2 N N N 0 -0.596 2.501 -7.662
32 HO3 H HO3 N N N 0 -3.34 0.037 6.54
33 H11 H 1H1 N N N 0 -3.164 -1.374 -5.043
34 H21 H 1H2 N N N 0 -3.279 0.441 -6.756
35 H22 H 2H2 N N N 0 -2.003 -0.741 -7.125
36 H31 H 1H3 N N N 0 -1.535 1.892 -5.663
37 H41 H 1H4 N N N 0 0.842 1.386 -6.083
38 H42 H 2H4 N N N 0 0.388 -0.122 -6.917
39 H61 H 1H6 N N N 0 1.824 0.711 -4.042
40 H71 H 1H7 N N N 0 0.079 -1.34 -2.394
41 H91 H 1H9 N N N 0 3.938 -0.157 -1.954
42 H92 H 2H9 N N N 0 2.878 1.017 -2.763
43 H111 H 1H11 N N N 0 4.138 1.905 -0.747
44 H112 H 2H11 N N N 0 2.378 2.125 -0.7
45 H121 H 1H12 N N N 0 3.933 -0.085 0.727
46 H122 H 2H12 N N N 0 3.209 1.353 1.496
47 H141 H 1H14 N N N 0 2.667 -1.846 -0.206
48 H151 H 1H15 N N N 0 0.519 -2.944 -0.408
49 H152 H 2H15 N N N 0 -0.361 -1.383 -0.323
50 H161 H 1H16 N N N 0 0.982 -2.949 1.897
51 H162 H 2H16 N N N 0 -0.455 -1.89 1.976
52 H171 H 1H17 N N N 0 2.347 -1.197 2.514
53 H181 H 1H18 N N N 0 0.826 1.296 -0.589
54 H182 H 2H18 N N N 0 -0.282 0.384 0.461
55 H183 H 3H18 N N N 0 0.677 1.724 1.131
56 H191 H 1H19 N N N 0 0.042 -2.583 -3.722
57 H192 H 2H19 N N N 0 -1.795 -2.891 -3.879
58 H201 H 1H20 N N N 0 -0.232 0.446 2.492
59 H211 H 1H21 N N N 0 2.452 0.927 3.862
60 H212 H 2H21 N N N 0 1.818 1.841 2.473
61 H213 H 3H21 N N N 0 0.997 1.934 4.049
62 H221 H 1H22 N N N 0 -0.33 -1.542 3.969
63 H222 H 2H22 N N N 0 1.198 -1.048 4.736
64 H231 H 1H23 N N N 0 0.144 1.071 5.472
65 H232 H 2H23 N N N 0 -1.384 0.577 4.706
66 H241 H 1H24 N N N 0 -1.482 -1.411 6.182
67 H242 H 2H24 N N N 0 0.045 -0.918 6.949
68 H261 H 1H26 N N N 0 -2.561 0.22 9.35
69 H262 H 2H26 N N N 0 -2.634 -1.28 8.396
70 H263 H 3H26 N N N 0 -1.106 -0.787 9.162
71 H271 H 1H27 N N N 0 0.148 1.188 8.288
72 H272 H 2H27 N N N 0 -0.486 2.102 6.899
73 H273 H 3H27 N N N 0 -1.306 2.196 8.476
74 HO1 H HO1 N N N 0 -2.988 0.05 -3.256