Chemical Components in the PDB

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PDBeChem : Atoms of Molecule

 Molecule : GMV

Atoms of a chemical element, that composes a molecule

Total Number of Atoms: 46


Record Atom Name Symbol PDB Name Stereochemistry Is Aromatic Is Leaving Atom Charge X-Coordinate Y-Coordinate Z-Coordinate
1 VB V VB N N N 0 5.692 -0.854 -0.381
2 O1B O O1B N N N 0 6.163 0.907 -0.136
3 O2B O O2B N N N 0 5.01 -1.829 1.023
4 O3B O O3B N N N 0 5.901 -1.641 -2.031
5 O4B O O4B N N N 0 7.394 -1.375 0.083
6 PA P PA N N N 0 3.215 0.48 0.308
7 O1A O O1A N N N 0 3.973 1.708 0.637
8 O2A O O2A N N N 0 3.089 -0.441 1.622
9 O3A O O3A N N N 0 3.989 -0.334 -0.846
10 O5' O O5' N N N 0 1.745 0.88 -0.211
11 C5' C C5' N N N 0 0.849 1.698 0.543
12 C4' C C4' R N N 0 -0.455 1.881 -0.237
13 C2' C C2' R N N 0 -2.67 2.02 0.771
14 O4' O O4' N N N 0 -1.141 0.622 -0.343
15 C3' C C3' S N N 0 -1.386 2.849 0.518
16 O3' O O3' N N N 0 -1.68 3.991 -0.288
17 O2' O O2' N N N 0 -3.839 2.815 0.562
18 C1' C C1' R N N 0 -2.556 0.909 -0.303
19 N9 N N9 N Y N 0 -3.312 -0.279 0.102
20 C8 C C8 N Y N 0 -2.832 -1.335 0.822
21 N7 N N7 N Y N 0 -3.776 -2.212 1.0
22 C5 C C5 N Y N 0 -4.914 -1.773 0.408
23 C6 C C6 N N N 0 -6.223 -2.295 0.281
24 O6 O O6 N N N 0 -6.516 -3.372 0.772
25 N1 N N1 N N N 0 -7.14 -1.57 -0.396
26 C2 C C2 N N N 0 -6.801 -0.367 -0.94
27 N2 N N2 N N N 0 -7.753 0.348 -1.622
28 N3 N N3 N N N 0 -5.589 0.129 -0.829
29 C4 C C4 N Y N 0 -4.63 -0.53 -0.168
30 H1B H H1B N N N 0 6.51 1.336 -0.93
31 H2B H H2B N N N 0 4.792 -2.744 0.798
32 H3B H H3B N N N 0 6.763 -2.06 -2.161
33 H4B H H4B N N N 0 7.532 -2.332 0.065
34 H2A H H2A N N N 0 2.603 -1.265 1.48
35 H5'1 H H5'1 N N N 0 0.636 1.219 1.499
36 H5'2 H H5'2 N N N 0 1.306 2.672 0.719
37 H4' H H4' N N N 0 -0.24 2.27 -1.232
38 H3' H H3' N N N 0 -0.935 3.154 1.462
39 H1' H H1' N N N 0 -2.901 1.274 -1.27
40 HA H HA N N N 0 -2.263 4.634 0.139
41 H2' H H2' N N N 0 -2.666 1.594 1.775
42 HB H HB N N N 0 -3.908 3.577 1.153
43 H8 H H8 N N N 0 -1.821 -1.428 1.188
44 H1 H H1 N N N 0 -8.044 -1.907 -0.496
45 H21N H H21N N N N 0 -8.653 -0.005 -1.712
46 H22N H H22N N N N 0 -7.527 1.206 -2.015