Chemical Components in the PDB

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PDBeChem : Atoms of Molecule

 Molecule : THM

Atoms of a chemical element, that composes a molecule

Total Number of Atoms: 31


Record Atom Name Symbol PDB Name Stereochemistry Is Aromatic Is Leaving Atom Charge X-Coordinate Y-Coordinate Z-Coordinate
1 O5' O O5* N N N 0 2.274 -0.724 -3.79
2 C5' C C5* N N N 0 1.208 0.202 -3.574
3 C4' C C4* R N N 0 0.116 -0.463 -2.735
4 O4' O O4* N N N 0 0.6 -0.76 -1.406
5 C3' C C3* S N N 0 -1.055 0.519 -2.484
6 O3' O O3* N N N 0 -1.993 0.481 -3.562
7 C2' C C2* N N N 0 -1.681 -0.046 -1.186
8 C1' C C1* R N N 0 -0.554 -0.889 -0.56
9 N1 N N1 N N N 0 -0.246 -0.391 0.782
10 C2 C C2 N N N 0 0.165 0.879 0.943
11 O2 O O2 N N N 0 0.278 1.6 -0.029
12 N3 N N3 N N N 0 0.454 1.363 2.165
13 C4 C C4 N N N 0 0.329 0.578 3.254
14 O4 O O4 N N N 0 0.59 1.015 4.36
15 C5 C C5 N N N 0 -0.098 -0.762 3.099
16 C5M C C5M N N N 0 -0.241 -1.662 4.299
17 C6 C C6 N N N 0 -0.382 -1.222 1.861
18 HO5' H *HO5 N N N 0 2.939 -0.266 -4.322
19 H5'1 H 1H5* N N N 0 0.792 0.508 -4.534
20 H5'2 H 2H5* N N N 0 1.588 1.077 -3.047
21 H4' H H4* N N N 0 -0.241 -1.37 -3.222
22 H3' H H3* N N N 0 -0.686 1.532 -2.328
23 HO3' H *HO3 N N N 0 -2.738 1.04 -3.303
24 H2'1 H 1H2* N N N 0 -2.542 -0.673 -1.42
25 H2'2 H 2H2* N N N 0 -1.969 0.764 -0.517
26 H1' H H1* N N N 0 -0.859 -1.934 -0.506
27 HN3 H HN3 N N N 0 0.75 2.281 2.263
28 HM51 H 1HM5 N N N 0 0.031 -1.112 5.2
29 HM52 H 2HM5 N N N 0 -1.275 -1.999 4.378
30 HM53 H 3HM5 N N N 0 0.414 -2.525 4.186
31 H6 H H6 N N N 0 -0.713 -2.24 1.723