Chemical Components in the PDB

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PDBeChem : Atoms of Molecule

 Molecule : YE2

Atoms of a chemical element, that composes a molecule

Total Number of Atoms: 101


Record Atom Name Symbol PDB Name Stereochemistry Is Aromatic Is Leaving Atom Charge X-Coordinate Y-Coordinate Z-Coordinate
1 CAB C C1 N N N 0 12.399 1.002 0.814
2 CAC C C2 N N N 0 13.57 1.532 1.218
3 CAE C C3 N Y N 0 15.597 2.867 0.675
4 CAF C C4 N Y N 0 14.466 2.17 0.24
5 CAG C C5 N Y N 0 14.19 2.08 -1.128
6 CAH C C6 N Y N 0 15.036 2.682 -2.043
7 CAI C C7 N Y N 0 16.158 3.372 -1.606
8 CAJ C C8 N Y N 0 16.437 3.465 -0.25
9 SAA S S1 N N N 0 11.431 0.046 1.933
10 OAD O O1 N N N 0 11.963 1.209 -0.452
11 OAK O O2 N N N 0 14.768 2.595 -3.373
12 OAL O O3 N N N 0 17.536 4.143 0.172
13 P1A P P1 N N N 0 -6.051 -2.738 -1.169
14 P2A P P2 N N N 0 -3.498 -4.24 -1.274
15 P3' P P3 N N N 0 -11.331 0.668 1.32
16 C2P C C9 N N N 0 10.035 -0.376 0.861
17 C3P C C10 N N N 0 9.033 -1.23 1.641
18 N4P N N1 N N N 0 7.903 -1.571 0.773
19 C5P C C11 N N N 0 6.891 -2.323 1.249
20 O5P O O4 N N N 0 6.916 -2.718 2.396
21 C6P C C12 N N N 0 5.729 -2.675 0.356
22 C7P C C13 N N N 0 4.727 -3.529 1.136
23 N8P N N2 N N N 0 3.597 -3.87 0.268
24 C9P C C14 N N N 0 2.585 -4.622 0.744
25 O9P O O5 N N N 0 2.563 -4.938 1.915
26 C5' C C15 N N N 0 -7.629 -0.651 -0.627
27 O5' O O6 N N N 0 -6.466 -1.428 -0.331
28 C4' C C16 R N N 0 -7.725 0.518 0.357
29 O4' O O7 N N N 0 -6.635 1.429 0.141
30 C3' C C17 S N N 0 -9.031 1.299 0.115
31 O3' O O8 N N N 0 -9.845 1.288 1.289
32 C2' C C18 R N N 0 -8.558 2.739 -0.202
33 O2' O O9 N N N 0 -9.399 3.704 0.433
34 C1' C C19 R N N 0 -7.135 2.756 0.412
35 N1A N N3 N Y N 0 -5.527 7.695 0.354
36 O1A O O10 N N N 0 -5.951 -2.395 -2.605
37 C2A C C20 N Y N 0 -6.367 7.11 1.189
38 O2A O O11 N N N 0 -7.168 -3.88 -0.967
39 N3A N N4 N Y N 0 -6.691 5.838 1.089
40 O3A O O12 N N N 0 -4.629 -3.281 -0.646
41 C4A C C21 N Y N 0 -6.176 5.081 0.126
42 O4A O O13 N N N 0 -3.249 -3.853 -2.681
43 C5A C C22 N Y N 0 -5.278 5.657 -0.788
44 O5A O O14 N N N 0 -3.999 -5.769 -1.219
45 C6A C C23 N Y N 0 -4.962 7.018 -0.641
46 N6A N N5 N N N 0 -4.084 7.64 -1.511
47 O6A O O15 N N N 0 -2.137 -4.09 -0.428
48 N7A N N6 N Y N 0 -4.908 4.682 -1.653
49 O7A O O16 N N N 0 -11.291 -0.733 0.844
50 C8A C C24 N Y N 0 -5.508 3.572 -1.336
51 O8A O O17 N N N 0 -11.898 0.707 2.826
52 N9A N N7 N Y N 0 -6.301 3.766 -0.245
53 O9A O O18 N N N 0 -12.293 1.533 0.362
54 C10 C C25 R N N 0 1.481 -5.071 -0.179
55 O10 O O19 N N N 0 1.814 -4.724 -1.524
56 C11 C C26 N N N 0 0.174 -4.382 0.217
57 C12 C C27 N N N 0 -0.916 -4.734 -0.798
58 C13 C C28 N N N 0 -0.252 -4.857 1.608
59 C14 C C29 N N N 0 0.382 -2.866 0.238
60 H1 H H1 N N N 0 13.851 1.489 2.26
61 H2 H H2 N N N 0 15.813 2.943 1.73
62 H3 H H3 N N N 0 13.318 1.542 -1.469
63 H4 H H4 N N N 0 16.816 3.839 -2.324
64 H5 H H5 N N N 0 14.215 3.313 -3.71
65 H6 H H6 N N N 0 18.331 3.597 0.247
66 H7 H H7 N N N 0 9.547 0.539 0.523
67 H8 H H8 N N N 0 10.396 -0.936 -0.002
68 H9 H H9 N N N 0 9.521 -2.144 1.979
69 H10 H H10 N N N 0 8.672 -0.67 2.504
70 H11 H H11 N N N 0 7.884 -1.256 -0.144
71 H12 H H12 N N N 0 5.241 -1.76 0.018
72 H13 H H13 N N N 0 6.09 -3.234 -0.507
73 H14 H H14 N N N 0 5.215 -4.443 1.474
74 H15 H H15 N N N 0 4.366 -2.969 1.999
75 H16 H H16 N N N 0 3.578 -3.555 -0.649
76 H17 H H17 N N N 0 -7.559 -0.265 -1.644
77 H18 H H18 N N N 0 -8.517 -1.276 -0.536
78 H19 H H19 N N N 0 -7.698 0.144 1.38
79 H20 H H20 N N N 0 -9.576 0.88 -0.73
80 H21 H H21 N N N 0 -8.519 2.908 -1.278
81 H22 H H22 N N N 0 -9.143 4.621 0.264
82 H23 H H23 N N N 0 -7.183 2.936 1.486
83 H24 H H24 N N N 0 -6.803 7.697 1.984
84 H25 H H25 N N N 0 -7.288 -4.155 -0.048
85 H26 H H26 N N N 0 -4.182 -6.09 -0.326
86 H27 H H27 N N N 0 -3.875 8.581 -1.399
87 H28 H H28 N N N 0 -3.678 7.136 -2.233
88 H29 H H29 N N N 0 -5.394 2.634 -1.86
89 H30 H H30 N N N 0 -12.791 0.348 2.92
90 H31 H H31 N N N 0 -12.367 2.463 0.615
91 H32 H H32 N N N 0 1.36 -6.152 -0.102
92 H33 H H33 N N N 0 1.937 -3.775 -1.666
93 H34 H H34 N N N 0 -1.064 -5.814 -0.812
94 H35 H H35 N N N 0 -0.612 -4.396 -1.788
95 H36 H H36 N N N 0 0.487 -4.538 2.343
96 H37 H H37 N N N 0 -1.222 -4.427 1.858
97 H38 H H38 N N N 0 -0.324 -5.945 1.614
98 H39 H H39 N N N 0 0.685 -2.528 -0.753
99 H40 H H40 N N N 0 -0.549 -2.376 0.52
100 H41 H H41 N N N 0 1.158 -2.616 0.961
101 H42 H H42 N N N 0 11.114 0.79 -0.65