Chemical Components in the PDB

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PDBeChem : Atoms of Molecule

 Molecule : 25L

Atoms of a chemical element, that composes a molecule

Total Number of Atoms: 115


Record Atom Name Symbol PDB Name Stereochemistry Is Aromatic Is Leaving Atom Charge X-Coordinate Y-Coordinate Z-Coordinate
1 N1 N N1 N Y N 0 -12.788 -6.465 0.191
2 C2 C C2 N Y N 0 -13.078 -5.768 -0.893
3 N3 N N3 N Y N 0 -12.517 -4.608 -1.159
4 C4 C C4 N Y N 0 -11.619 -4.084 -0.33
5 C5 C C5 N Y N 0 -11.276 -4.786 0.838
6 C6 C C6 N Y N 0 -11.903 -6.021 1.077
7 N6 N N6 N N N 0 -11.606 -6.758 2.211
8 N7 N N7 N Y N 0 -10.354 -4.043 1.495
9 C8 C C8 N Y N 0 -10.116 -2.955 0.822
10 N9 N N9 N Y N 0 -10.872 -2.934 -0.312
11 C1' C C1* R N N 0 -10.884 -1.877 -1.327
12 C2' C C2* R N N 0 -12.031 -0.871 -1.054
13 O2' O O2* N N N 0 -13.252 -1.318 -1.647
14 C3' C C3* S N N 0 -11.513 0.409 -1.753
15 O3' O O3* N N N 0 -12.091 0.538 -3.054
16 C4' C C4* R N N 0 -9.991 0.193 -1.858
17 O4' O O4* N N N 0 -9.694 -1.065 -1.229
18 C5' C C5* N N N 0 -9.254 1.323 -1.136
19 O5' O O5* N N N 0 -7.847 1.179 -1.337
20 NAB N NAB N N N 0 4.759 6.535 3.224
21 NAC N NAC N N N 0 -5.098 1.109 6.044
22 OAD O OAD N N N 0 14.229 -5.024 0.397
23 OAE O OAE N N N 0 10.637 -0.35 -2.289
24 OAF O OAF N N N 0 -6.954 2.287 0.747
25 OAG O OAG N N N 0 2.206 3.826 -1.139
26 OAH O OAH N N N 0 12.848 -2.951 -1.4
27 OAK O OAK N N N 0 4.28 -0.171 -3.024
28 OAL O OAL N N N 0 -3.763 2.384 -2.946
29 OAM O OAM N N N 0 9.733 -2.598 -3.0
30 OAN O OAN N N N 0 12.745 -5.82 2.276
31 OAO O OAO N N N 0 14.294 -3.714 2.553
32 OAP O OAP N N N 0 -6.957 3.652 -1.376
33 OAQ O OAQ N N N 0 2.156 2.918 -3.494
34 OAR O OAR N N N 0 12.833 -1.13 0.348
35 CAT C CAT N Y N 0 2.474 3.859 2.587
36 CAU C CAU N Y N 0 -6.234 -0.539 3.083
37 CAW C CAW N Y N 0 6.409 3.558 0.573
38 CAX C CAX N Y N 0 -2.788 2.198 2.567
39 CAY C CAY N N N 0 7.512 -0.305 -2.247
40 CBA C CBA N N N 0 -0.659 2.778 -1.817
41 NBC N NBC N Y N 0 2.994 4.979 3.057
42 NBD N NBD N Y N 0 -6.131 -0.155 4.342
43 NBF N NBF N Y N 0 3.135 3.06 1.776
44 NBG N NBG N Y N 0 -5.429 -0.096 2.14
45 NBI N NBI N Y N 0 6.21 4.6 1.326
46 NBJ N NBJ N Y N 0 -3.274 2.081 3.769
47 OBK O OBK N N N 0 8.383 -1.03 -1.378
48 OBM O OBM N N N 0 0.53 2.006 -1.64
49 OBO O OBO N N N 0 6.429 0.91 -0.426
50 OBP O OBP N N N 0 -1.878 1.615 -0.049
51 OBQ O OBQ N N N 0 3.105 1.495 -1.498
52 OBR O OBR N N N 0 -5.28 1.657 -1.033
53 OBS O OBS N N N 0 12.212 -3.613 0.951
54 OBT O OBT N N N 0 10.598 -2.182 -0.552
55 CBV C CBV N Y N 0 4.224 5.359 2.727
56 CBW C CBW N Y N 0 -5.197 0.711 4.723
57 CBY C CBY N Y N 0 4.968 4.539 1.863
58 CBZ C CBZ N Y N 0 -4.314 1.213 3.752
59 CCB C CCB N Y N 0 4.371 3.357 1.391
60 CCC C CCC N Y N 0 -4.465 0.772 2.427
61 CCF C CCF R N N 0 5.223 0.74 -2.458
62 CCG C CCG R N N 0 -3.18 2.725 -1.687
63 CCI C CCI R N N 0 6.2 -0.0040 -1.52
64 CCJ C CCJ R N N 0 -1.878 1.925 -1.459
65 CCK C CCK R N N 0 4.511 1.751 -1.532
66 CCL C CCL R N N 0 -4.1 2.284 -0.527
67 CCN C CCN R N N 0 5.141 1.497 -0.144
68 CCO C CCO R N N 0 -3.245 1.27 0.265
69 NCQ N NCQ N Y N 0 5.304 2.76 0.58
70 NCR N NCR N Y N 0 -3.489 1.41 1.703
71 PCS P PCS N N N 0 13.388 -4.553 1.52
72 PCT P PCT N N N 0 9.855 -1.515 -1.815
73 PCU P PCU N N N 0 -6.764 2.196 -0.718
74 PCV P PCV N N N 0 2.004 2.588 -1.926
75 PCW P PCW N N N 0 12.138 -2.479 -0.19
76 H2 H H2 N N N 0 -13.803 -6.166 -1.588
77 HN6 H HN6 N N N 0 -12.045 -7.609 2.365
78 HN6A H HN6A N N N 0 -10.958 -6.424 2.85
79 H8 H H8 N N N 0 -9.421 -2.183 1.118
80 H1' H H1* N N N 0 -10.977 -2.305 -2.325
81 H2' H H2* N N N 0 -12.158 -0.707 0.016
82 HO2' H HO2* N N N 0 -14.0 -0.722 -1.504
83 H3' H H3* N N N 0 -11.735 1.29 -1.149
84 HO3' H HO3* N N N 0 -13.055 0.618 -3.05
85 H4' H H4* N N N 0 -9.692 0.163 -2.906
86 H5' H H5* N N N 0 -9.581 2.283 -1.535
87 H5'A H H5*A N N N 0 -9.475 1.278 -0.07
88 HNAB H HNAB N N N 0 4.235 7.092 3.82
89 HNAA H HNAA N N N 0 5.658 6.801 2.976
90 HNAC H HNAC N N N 0 -5.714 0.755 6.705
91 HNAD H HNAD N N N 0 -4.412 1.742 6.31
92 HOAK H HOAK N N N 0 4.68 -0.865 -3.567
93 HOAL H HOAL N N N 0 -3.201 2.584 -3.707
94 HOAM H HOAM N N N 0 9.232 -3.389 -2.76
95 HOAN H HOAN N N N 0 13.397 -6.431 2.645
96 HOAO H HOAO N N N 0 13.807 -3.374 3.316
97 HOAP H HOAP N N N 0 -6.847 3.668 -2.336
98 HOAQ H HOAQ N N N 0 2.036 2.151 -4.071
99 HOAR H HOAR N N N 0 12.418 -0.764 1.141
100 HAT H HAT N N N 0 1.473 3.586 2.885
101 HAU H HAU N N N 0 -7.004 -1.249 2.817
102 HAW H HAW N N N 0 7.317 3.354 0.024
103 HAX H HAX N N N 0 -1.953 2.826 2.295
104 HAY H HAY N N N 0 7.988 0.631 -2.54
105 HAYA H HAYA N N N 0 7.306 -0.902 -3.136
106 HBA H HBA N N N 0 -0.625 3.652 -1.168
107 HBAA H HBAA N N N 0 -0.733 3.099 -2.856
108 HCF H HCF N N N 0 5.771 1.26 -3.244
109 HCG H HCG N N N 0 -2.984 3.796 -1.636
110 HCI H HCI N N N 0 5.749 -0.927 -1.156
111 HCJ H HCJ N N N 0 -1.886 1.009 -2.049
112 HCK H HCK N N N 0 4.704 2.772 -1.86
113 HCL H HCL N N N 0 -4.361 3.138 0.099
114 HCN H HCN N N N 0 4.525 0.806 0.431
115 HCO H HCO N N N 0 -3.464 0.253 -0.061