Chemical Components in the PDB

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PDBeChem : Atoms of Molecule

 Molecule : SYF

Atoms of a chemical element, that composes a molecule

Total Number of Atoms: 117


Record Atom Name Symbol PDB Name Stereochemistry Is Aromatic Is Leaving Atom Charge X-Coordinate Y-Coordinate Z-Coordinate
1 C8 C C1 N N N 0 7.852 1.261 -1.0
2 C9 C C2 N N N 0 6.333 -0.642 -0.913
3 C10 C C3 S N N 0 5.988 -2.041 -0.47
4 C11 C C4 N N N 0 6.993 -3.045 -1.073
5 C12 C C5 R N N 0 6.099 -4.264 -1.422
6 C13 C C6 N N N 0 4.786 -3.57 -1.863
7 N1 N N1 N N N 0 7.517 -0.099 -0.569
8 C6 C C7 N Y N 0 10.34 1.356 -1.255
9 C3 C C8 N Y N 0 13.078 2.677 0.95
10 C5 C C9 N Y N 0 11.595 1.694 -0.794
11 C4 C C10 N Y N 0 11.736 2.312 0.449
12 C2 C C11 N Y N 0 15.423 2.889 1.669
13 C15 C C12 S N N 0 2.188 -2.333 -1.15
14 C16 C C13 N N N 0 0.062 -2.899 -0.103
15 C17 C C14 N N N 0 -1.007 -2.662 0.932
16 C18 C C15 N N N 0 -2.121 -3.697 0.761
17 C19 C C16 N N N 0 -4.228 -4.391 1.67
18 C22 C C17 N N N 0 -7.325 -0.98 3.099
19 C26 C C18 N Y N 0 -9.694 2.432 0.417
20 C29 C C19 N Y N 0 -11.423 5.055 -1.342
21 C30 C C20 N N N 0 -12.23 5.955 -2.257
22 C31 C C21 N N N 0 -11.741 7.381 -1.916
23 C32 C C22 N N N 0 -11.237 7.203 -0.467
24 C33 C C23 N Y N 0 -9.839 1.243 -0.296
25 C34 C C24 N Y N 0 -9.283 0.078 0.19
26 C36 C C25 N N N 0 -10.833 -3.206 -0.512
27 C37 C C26 N N N 0 -11.937 -4.028 0.101
28 O7 O O1 N N N 0 -10.231 -3.623 -1.479
29 N6 N N2 N N N 0 -10.513 -2.007 0.015
30 C35 C C27 N N N 0 -9.439 -1.208 -0.581
31 C27 C C28 N Y N 0 -10.296 3.686 -0.1
32 N5 N N3 N Y N 0 -11.081 3.802 -1.188
33 C24 C C31 N Y N 0 -8.43 1.272 2.096
34 N4 N N4 N Y N 0 -10.875 5.783 -0.348
35 C28 C C29 N Y N 0 -10.157 4.923 0.442
36 C25 C C30 N Y N 0 -8.988 2.439 1.618
37 C23 C C32 N Y N 0 -8.581 0.088 1.386
38 O6 O O2 N N N 0 -8.035 -1.062 1.862
39 C21 C C33 N N N 0 -6.786 -2.363 3.471
40 O5 O O3 N N N 0 -5.816 -2.772 2.505
41 C20 C C34 N N N 0 -5.247 -4.058 2.761
42 O4 O O4 N N N 0 -3.135 -3.473 1.742
43 O3 O O5 N N N 0 -0.055 -3.806 -0.899
44 N3 N N5 N N N 0 1.149 -2.103 -0.144
45 C44 C C35 N N N 0 1.803 -1.627 -2.451
46 C47 C C36 N N N 0 1.647 -0.128 -2.192
47 C46 C C37 N N N 0 2.898 -1.852 -3.497
48 C45 C C38 N N N 0 0.48 -2.196 -2.968
49 C14 C C39 N N N 0 3.5 -1.786 -0.651
50 O2 O O6 N N N 0 3.519 -0.785 0.034
51 N2 N N6 N N N 0 4.654 -2.408 -0.965
52 O1 O O7 N N N 0 5.883 -5.087 -0.274
53 O O O8 N N N 0 5.544 -0.006 -1.58
54 C7 C C40 N Y N 0 9.221 1.627 -0.487
55 C48 C C41 N Y N 0 9.354 2.234 0.749
56 S S S1 N Y N 0 14.5 1.636 0.962
57 C49 C C42 N Y N 0 10.604 2.583 1.219
58 C1 C C43 N Y N 0 13.432 3.866 1.484
59 C C C44 N N N 0 12.466 5.011 1.643
60 N N N7 N Y N 0 14.692 3.937 1.853
61 H1 H H1 N N N 0 7.847 1.308 -2.089
62 H2 H H2 N N N 0 7.116 1.959 -0.602
63 H3 H H3 N N N 0 6.009 -2.1 0.618
64 H4 H H4 N N N 0 7.456 -2.636 -1.971
65 H5 H H5 N N N 0 7.751 -3.32 -0.339
66 H6 H H6 N N N 0 6.529 -4.843 -2.24
67 H7 H H7 N N N 0 4.859 -3.243 -2.9
68 H8 H H8 N N N 0 3.94 -4.246 -1.738
69 H9 H H9 N N N 0 8.148 -0.608 -0.036
70 H10 H H10 N N N 0 10.229 0.882 -2.219
71 H11 H H11 N N N 0 12.467 1.481 -1.394
72 H12 H H12 N N N 0 16.469 2.814 1.928
73 H13 H H13 N N N 0 2.287 -3.403 -1.332
74 H14 H H14 N N N 0 -0.575 -2.755 1.929
75 H15 H H15 N N N 0 -1.419 -1.661 0.807
76 H16 H H16 N N N 0 -2.553 -3.605 -0.235
77 H17 H H17 N N N 0 -1.709 -4.699 0.887
78 H18 H H18 N N N 0 -3.86 -5.406 1.814
79 H19 H H19 N N N 0 -4.704 -4.312 0.692
80 H20 H H20 N N N 0 -6.494 -0.282 2.996
81 H21 H H21 N N N 0 -7.997 -0.629 3.882
82 H22 H H22 N N N 0 -12.024 5.721 -3.302
83 H23 H H23 N N N 0 -13.295 5.857 -2.047
84 H24 H H24 N N N 0 -10.928 7.683 -2.577
85 H25 H H25 N N N 0 -12.562 8.096 -1.958
86 H26 H H26 N N N 0 -10.364 7.831 -0.292
87 H27 H H27 N N N 0 -12.029 7.452 0.24
88 H28 H H28 N N N 0 -10.386 1.235 -1.227
89 H29 H H29 N N N 0 -11.521 -4.68 0.869
90 H30 H H30 N N N 0 -12.677 -3.365 0.549
91 H31 H H31 N N N 0 -12.411 -4.633 -0.672
92 H32 H H32 N N N 0 -10.994 -1.673 0.788
93 H33 H H33 N N N 0 -9.687 -0.983 -1.618
94 H34 H H34 N N N 0 -8.505 -1.769 -0.544
95 H35 H H35 N N N 0 -9.588 5.18 1.324
96 H36 H H36 N N N 0 -8.877 3.358 2.175
97 H37 H H37 N N N 0 -7.882 1.277 3.026
98 H38 H H38 N N N 0 -6.322 -2.319 4.457
99 H39 H H39 N N N 0 -7.607 -3.08 3.488
100 H40 H H40 N N N 0 -6.036 -4.81 2.763
101 H41 H H41 N N N 0 -4.751 -4.049 3.731
102 H45 H H45 N N N 0 0.867 0.033 -1.447
103 H42 H H42 N N N 0 1.242 -1.377 0.493
104 H43 H H43 N N N 0 2.589 0.278 -1.824
105 H44 H H44 N N N 0 1.372 0.375 -3.119
106 H46 H H46 N N N 0 3.071 -2.922 -3.616
107 H47 H H47 N N N 0 2.584 -1.426 -4.449
108 H48 H H48 N N N 0 3.818 -1.369 -3.168
109 H49 H H49 N N N 0 -0.3 -2.036 -2.224
110 H50 H H50 N N N 0 0.206 -1.693 -3.895
111 H51 H H51 N N N 0 0.592 -3.264 -3.153
112 H52 H H52 N N N 0 5.33 -5.862 -0.444
113 H53 H H53 N N N 0 8.477 2.443 1.344
114 H54 H H54 N N N 0 10.705 3.061 2.182
115 H55 H H55 N N N 0 12.039 4.989 2.646
116 H56 H H56 N N N 0 12.993 5.954 1.493
117 H57 H H57 N N N 0 11.669 4.919 0.906