Chemical Components in the PDB

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PDBeChem : Atoms of Molecule

 Molecule : LP5

Atoms of a chemical element, that composes a molecule

Total Number of Atoms: 114


Record Atom Name Symbol PDB Name Stereochemistry Is Aromatic Is Leaving Atom Charge X-Coordinate Y-Coordinate Z-Coordinate
1 O48 O O48 N N N 0 3.685 2.929 3.663
2 P45 P P45 N N N 0 3.192 4.207 2.803
3 O46 O O46 N N N 0 1.989 4.816 3.697
4 O47 O O47 N N N 0 4.268 5.188 2.437
5 O1 O O1 N N N 0 2.406 3.552 1.554
6 C1 C C1 R N N 0 1.37 2.611 1.828
7 C2 C C2 R N N 0 1.297 1.601 0.676
8 N2 N N2 N N N 0 1.148 2.27 -0.6
9 C7 C C7 N N N 0 1.691 1.757 -1.769
10 C8 C C8 N N N 0 1.388 2.647 -2.965
11 C16 C C16 R N N 0 2.005 2.126 -4.267
12 O44 O O44 N N N 0 3.416 2.003 -4.099
13 C17 C C17 N N N 0 1.709 3.078 -5.434
14 C18 C C18 N N N 0 2.29 2.633 -6.782
15 C19 C C19 N N N 0 1.959 3.588 -7.931
16 C20 C C20 N N N 0 2.633 3.141 -9.231
17 C21 C C21 N N N 0 2.364 4.081 -10.41
18 C22 C C22 N N N 0 3.03 3.694 -11.734
19 C23 C C23 N N N 0 2.82 4.671 -12.896
20 C24 C C24 N N N 0 3.573 4.274 -14.168
21 C25 C C25 N N N 0 3.254 5.232 -15.319
22 C26 C C26 N N N 0 4.004 4.899 -16.611
23 C27 C C27 N N N 0 3.712 5.864 -17.749
24 O7 O O7 N N N 0 2.336 0.714 -1.846
25 C3 C C3 R N N 0 0.157 0.6 0.905
26 C4 C C4 R N N 0 -1.154 1.294 1.291
27 C5 C C5 R N N 0 -0.979 2.416 2.329
28 O5 O O5 N N N 0 0.119 3.275 1.999
29 C6 C C6 N N N 0 -0.872 1.912 3.767
30 O6 O O6 N N N 0 -0.704 3.026 4.623
31 O4 O O4 N N N 0 -1.709 1.864 0.102
32 O3 O O3 N N N 0 0.523 -0.304 1.947
33 C28 C C28 N N N 0 1.665 -1.024 1.729
34 O42 O O42 N N N 0 2.094 -1.371 0.637
35 C29 C C29 N N N 0 2.326 -1.311 3.062
36 C30 C C30 R N N 0 3.639 -2.084 2.906
37 O43 O O43 N N N 0 3.379 -3.294 2.185
38 C31 C C31 N N N 0 4.281 -2.472 4.245
39 C32 C C32 N N N 0 4.584 -1.322 5.208
40 C33 C C33 N N N 0 5.601 -0.319 4.661
41 C34 C C34 N N N 0 5.934 0.755 5.7
42 C35 C C35 N N N 0 6.978 1.74 5.168
43 C36 C C36 N N N 0 7.332 2.792 6.221
44 C37 C C37 N N N 0 8.391 3.793 5.751
45 C38 C C38 N N N 0 8.798 4.8 6.829
46 C39 C C39 N N N 0 9.848 5.781 6.303
47 C40 C C40 N N N 0 10.233 6.808 7.368
48 C41 C C41 N N N 0 11.301 7.764 6.859
49 HO48 H HO48 N N N 0 4.249 3.077 4.451
50 HO46 H HO46 N N N 0 2.21 5.357 4.484
51 H1 H H1 N N N 0 1.64 2.111 2.764
52 H2 H H2 N N N 0 2.256 1.073 0.614
53 HN2 H HN2 N N N 0 0.629 3.142 -0.64
54 H81 H 1H8 N N N 0 0.297 2.704 -3.063
55 H82 H 2H8 N N N 0 1.769 3.65 -2.738
56 H16 H H16 N N N 0 1.612 1.128 -4.489
57 HO44 H HO44 N N N 0 3.622 1.06 -4.186
58 H171 H 1H17 N N N 0 2.135 4.064 -5.206
59 H172 H 2H17 N N N 0 0.625 3.214 -5.533
60 H181 H 1H18 N N N 0 1.939 1.623 -7.026
61 H182 H 2H18 N N N 0 3.38 2.566 -6.675
62 H191 H 1H19 N N N 0 0.875 3.628 -8.086
63 H192 H 2H19 N N N 0 2.29 4.598 -7.665
64 H201 H 1H20 N N N 0 2.26 2.144 -9.501
65 H202 H 2H20 N N N 0 3.712 3.033 -9.074
66 H222 H 2H22 N N N 0 4.108 3.583 -11.557
67 H211 H 1H21 N N N 0 1.28 4.156 -10.557
68 H212 H 2H21 N N N 0 2.699 5.09 -10.14
69 H221 H 1H22 N N N 0 2.675 2.704 -12.043
70 H231 H 1H23 N N N 0 3.108 5.684 -12.593
71 H232 H 2H23 N N N 0 1.745 4.709 -13.114
72 H241 H 1H24 N N N 0 3.298 3.252 -14.454
73 H242 H 2H24 N N N 0 4.65 4.281 -13.974
74 H251 H 1H25 N N N 0 2.178 5.195 -15.529
75 H252 H 2H25 N N N 0 3.482 6.261 -15.016
76 H261 H 1H26 N N N 0 3.717 3.89 -16.928
77 H262 H 2H26 N N N 0 5.084 4.876 -16.42
78 H271 H 1H27 N N N 0 4.096 6.866 -17.535
79 H272 H 2H27 N N N 0 2.636 5.938 -17.936
80 H273 H 3H27 N N N 0 4.193 5.516 -18.669
81 H3 H H3 N N N 0 0.008 -0.001 0.0
82 H4 H H4 N N N 0 -1.881 0.562 1.662
83 H5 H H5 N N N 0 -1.866 3.059 2.29
84 H61 H 1H6 N N N 0 -0.013 1.248 3.865
85 H62 H 2H6 N N N 0 -1.782 1.379 4.042
86 HO6 H HO6 N N N 0 0.249 3.11 4.8
87 HO4 H HO4 N N N 0 -1.002 1.86 -0.561
88 H291 H 1H29 N N N 0 1.62 -1.896 3.664
89 H292 H 2H29 N N N 0 2.502 -0.344 3.543
90 H30 H H30 N N N 0 4.352 -1.513 2.302
91 HO43 H HO43 N N N 0 3.915 -3.98 2.607
92 H311 H 1H31 N N N 0 5.211 -3.019 4.039
93 H312 H 2H31 N N N 0 3.635 -3.197 4.758
94 H321 H 1H32 N N N 0 3.657 -0.802 5.477
95 H322 H 2H32 N N N 0 4.971 -1.754 6.139
96 H331 H 1H33 N N N 0 5.204 0.165 3.762
97 H332 H 2H33 N N N 0 6.519 -0.845 4.371
98 H341 H 1H34 N N N 0 5.021 1.299 5.971
99 H342 H 2H34 N N N 0 6.31 0.278 6.613
100 H351 H 1H35 N N N 0 6.585 2.226 4.268
101 H352 H 2H35 N N N 0 7.882 1.194 4.875
102 H361 H 1H36 N N N 0 6.426 3.331 6.526
103 H362 H 2H36 N N N 0 7.714 2.287 7.117
104 H371 H 1H37 N N N 0 9.277 3.228 5.435
105 H372 H 2H37 N N N 0 8.025 4.326 4.864
106 H381 H 1H38 N N N 0 9.199 4.265 7.699
107 H382 H 2H38 N N N 0 7.921 5.362 7.169
108 H391 H 1H39 N N N 0 9.457 6.298 5.418
109 H392 H 2H39 N N N 0 10.741 5.229 5.985
110 H401 H 1H40 N N N 0 9.349 7.383 7.668
111 H402 H 2H40 N N N 0 10.606 6.295 8.262
112 H411 H 1H41 N N N 0 10.947 8.317 5.983
113 H412 H 2H41 N N N 0 12.211 7.223 6.581
114 H413 H 3H41 N N N 0 11.561 8.489 7.636