Chemical Components in the PDB

pdbe.org/chem
wwPDB
EMDataBank
spacer

PDBeChem : Atoms of Molecule

 Molecule : VRD

Atoms of a chemical element, that composes a molecule

Total Number of Atoms: 48


Record Atom Name Symbol PDB Name Stereochemistry Is Aromatic Is Leaving Atom Charge X-Coordinate Y-Coordinate Z-Coordinate
1 C01 C C1 N N N 0 1.535 3.055 -2.338
2 C02 C C2 N N N 0 1.745 2.468 -0.941
3 C03 C C3 N Y N 0 1.076 1.12 -0.857
4 C04 C C4 N Y N 0 -0.256 0.909 -0.551
5 C05 C C5 N Y N 0 -0.457 -0.553 -0.585
6 C06 C C6 N Y N 0 0.79 -1.105 -0.914
7 C08 C C7 N N N 0 3.095 -0.221 -1.422
8 C09 C C8 N Y N 0 3.897 -0.461 -0.169
9 C10 C C9 N Y N 0 4.066 -1.747 0.308
10 C11 C C10 N Y N 0 4.801 -1.967 1.458
11 C12 C C11 N Y N 0 5.368 -0.901 2.13
12 C13 C C12 N Y N 0 5.201 0.386 1.652
13 C14 C C13 N Y N 0 4.47 0.605 0.5
14 C15 C C14 N Y N 0 0.917 -2.486 -1.022
15 C16 C C15 N Y N 0 -0.175 -3.299 -0.807
16 C17 C C16 N Y N 0 -1.408 -2.756 -0.482
17 C18 C C17 N Y N 0 -1.557 -1.385 -0.37
18 C20 C C18 N N N 0 -3.844 -1.767 0.155
19 C21 C C19 N N N 0 -5.095 -0.999 0.497
20 C24 C C20 N N N 0 -1.261 1.927 -0.253
21 C26 C C21 N N N 0 -1.417 2.436 1.14
22 N07 N N1 N Y N 0 1.681 -0.062 -1.074
23 N28 N N2 N N N 0 -2.413 3.295 1.436
24 O19 O O1 N N N 0 -2.766 -0.852 -0.051
25 O22 O O2 N N N 0 -5.066 0.207 0.557
26 O23 O O3 N N N 0 -6.242 -1.656 0.734
27 O25 O O4 N N N 0 -1.97 2.36 -1.141
28 O27 O O5 N N N 0 -0.647 2.077 2.007
29 H1 H H1 N N N 0 0.468 3.089 -2.561
30 H2 H H2 N N N 0 1.946 4.064 -2.374
31 H3 H H3 N N N 0 2.04 2.43 -3.075
32 H4 H H4 N N N 0 2.812 2.356 -0.751
33 H5 H H5 N N N 0 1.311 3.136 -0.197
34 H6 H H6 N N N 0 3.452 0.683 -1.915
35 H7 H H7 N N N 0 3.21 -1.071 -2.095
36 H8 H H8 N N N 0 3.622 -2.581 -0.216
37 H9 H H9 N N N 0 4.932 -2.972 1.831
38 H10 H H10 N N N 0 5.939 -1.072 3.031
39 H11 H H11 N N N 0 5.644 1.219 2.177
40 H12 H H12 N N N 0 4.339 1.61 0.126
41 H13 H H13 N N N 0 1.872 -2.921 -1.275
42 H14 H H14 N N N 0 -0.069 -4.371 -0.892
43 H15 H H15 N N N 0 -2.256 -3.405 -0.316
44 H16 H H16 N N N 0 -3.596 -2.441 0.974
45 H17 H H17 N N N 0 -4.009 -2.345 -0.754
46 H18 H H18 N N N 0 -3.029 3.581 0.743
47 H19 H H19 N N N 0 -2.515 3.626 2.342
48 H20 H H20 N N N 0 -7.018 -1.121 0.949