Chemical Components in the PDB

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PDBeChem : Atoms of Molecule

 Molecule : UGA

Atoms of a chemical element, that composes a molecule

Total Number of Atoms: 59


Record Atom Name Symbol PDB Name Stereochemistry Is Aromatic Is Leaving Atom Charge X-Coordinate Y-Coordinate Z-Coordinate
1 C1' C C1' R N N 0 0.767 0.386 4.945
2 C2' C C2' R N N 0 1.013 -0.445 6.205
3 O2' O O2' N N N 0 2.225 -1.188 6.061
4 C3' C C3' S N N 0 -0.159 -1.411 6.404
5 O3' O O3' N N N 0 -0.019 -2.086 7.655
6 C4' C C4' S N N 0 -1.466 -0.609 6.396
7 O4' O O4' N N N 0 -2.582 -1.501 6.427
8 C5' C C5' S N N 0 -1.523 0.237 5.122
9 O5' O O5' N N N 0 -0.427 1.15 5.096
10 C6' C C6' N N N 0 -2.817 1.008 5.092
11 O'P O O6'1 N N N 0 -2.801 2.215 5.052
12 O'Q O O6'2 N N N 0 -3.989 0.352 5.11
13 PB P PB S N N 0 1.166 0.328 2.536
14 O1B O O1B N N N 0 2.582 0.705 2.743
15 O2B O O2B N N N 0 0.28 1.658 2.338
16 O3B O O3B N N N 0 0.633 -0.484 3.82
17 O3A O O3A N N N 0 1.043 -0.598 1.225
18 PA P PA R N N 0 1.59 0.273 -0.012
19 O1A O O1A N N N 0 3.0 0.65 0.233
20 O2A O O2A N N N 0 0.698 1.603 -0.168
21 O5D O O5* N N N 0 1.496 -0.597 -1.364
22 C5D C C5* N N N 0 1.993 0.226 -2.421
23 C4D C C4* R N N 0 1.931 -0.545 -3.74
24 O4D O O4* N N N 0 0.568 -0.88 -4.047
25 C3D C C3* S N N 0 2.458 0.337 -4.889
26 O3D O O3* N N N 0 3.592 -0.267 -5.513
27 C2D C C2* R N N 0 1.268 0.413 -5.881
28 O2D O O2* N N N 0 1.724 0.311 -7.231
29 C1D C C1* R N N 0 0.434 -0.83 -5.483
30 N1 N N1 N Y N 0 -0.969 -0.657 -5.865
31 C6 C C6 N Y N 0 -1.574 -1.588 -6.664
32 C2 C C2 N Y N 0 -1.653 0.413 -5.421
33 O2 O O2 N N N 0 -1.096 1.228 -4.711
34 N3 N N3 N Y N 0 -2.943 0.599 -5.76
35 C4 C C4 N Y N 0 -3.575 -0.295 -6.546
36 O4 O O4 N N N 0 -4.743 -0.129 -6.849
37 C5 C C5 N Y N 0 -2.868 -1.428 -7.015
38 H1'1 H 1H1' N N N 0 1.609 1.059 4.784
39 H2'1 H 1H2' N N N 0 1.091 0.215 7.069
40 HO'2 H 2HO' N N N 0 2.936 -0.544 5.939
41 H3'1 H 1H3' N N N 0 -0.173 -2.141 5.594
42 HO'3 H 3HO' N N N 0 0.816 -2.572 7.618
43 H4'1 H 1H4' N N N 0 -1.495 0.042 7.269
44 HO'4 H 4HO' N N N 0 -3.378 -0.952 6.416
45 H5'1 H 1H5' N N N 0 -1.47 -0.416 4.252
46 HO'6 H 6HO' N N N 0 -4.82 0.847 5.09
47 HOB2 H 2HOB N N N 0 -0.632 1.368 2.206
48 HOA2 H 2HOA N N N 0 -0.21 1.313 -0.327
49 H5A1 H 1H5* N N N 0 1.384 1.126 -2.497
50 H5'2 H 2H5* N N N 0 3.026 0.503 -2.21
51 H4A1 H 1H4* N N N 0 2.529 -1.453 -3.667
52 H3A1 H 1H3* N N N 0 2.712 1.331 -4.52
53 HOA3 H 3HO* N N N 0 3.837 0.299 -6.258
54 H2A1 H 1H2* N N N 0 0.696 1.329 -5.734
55 HOC2 H 2HO* N N N 0 2.234 1.112 -7.415
56 H1A1 H 1H1* N N N 0 0.846 -1.73 -5.939
57 H51 H 1H5 N N N 0 -3.358 -2.155 -7.646
58 H61 H 1H6 N N N 0 -1.019 -2.446 -7.013
59 HN3 H HN3 N N N 0 -3.42 1.378 -5.434