|
827 : Summary
Code
|
827
|
One-letter code
|
X
|
Molecule name
|
(1R,2S,3S,4R,6S)-4,6-diamino-3-{[3-deoxy-4-C-methyl-3-(methylamino)-beta-L-arabinopyranosyl]oxy}-2-hydroxycyclohexyl 2-amino-2-deoxy-alpha-D-glucopyranoside
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Systematic names
|
|
Formula
|
C19 H38 N4 O10
|
Formal charge
|
0
|
Molecular weight
|
482.526 Da
|
SMILES
|
Type | Program | Version | Descriptor |
SMILES
|
ACDLabs |
12.01 |
C1(C(C(O)C(C(CO)O1)O)N)OC2C(N)CC(C(C2O)OC3OCC(O)(C)C(C3O)NC)N |
SMILES
|
CACTVS |
3.385 |
CN[CH]1[CH](O)[CH](OC[C]1(C)O)O[CH]2[CH](N)C[CH](N)[CH](O[CH]3O[CH](CO)[CH](O)[CH](O)[CH]3N)[CH]2O |
SMILES
|
OpenEye OEToolkits |
2.0.6 |
CC1(COC(C(C1NC)O)OC2C(CC(C(C2O)OC3C(C(C(C(O3)CO)O)O)N)N)N)O |
Canonical SMILES
|
CACTVS |
3.385 |
CN[C@@H]1[C@@H](O)[C@H](OC[C@]1(C)O)O[C@H]2[C@H](N)C[C@H](N)[C@@H](O[C@H]3O[C@H](CO)[C@@H](O)[C@H](O)[C@H]3N)[C@@H]2O |
Canonical SMILES
|
OpenEye OEToolkits |
2.0.6 |
C[C@@]1(CO[C@@H]([C@@H]([C@H]1NC)O)O[C@H]2[C@@H](C[C@@H]([C@H]([C@@H]2O)O[C@@H]3[C@@H]([C@H]([C@@H]([C@H](O3)CO)O)O)N)N)N)O |
|
IUPAC InChI | InChI=1S/C19H38N4O10/c1-19(29)5-30-18(13(28)16(19)23-2)33-15-7(21)3-6(20)14(12(15)27)32-17-9(22)11(26)10(25)8(4-24)31-17/h6-18,23-29H,3-5,20-22H2,1-2H3/t6-,7+,8+,9+,10+,11+,12-,13+,14+,15-,16+,17+,18+,19-/m0/s1 |
IUPAC InChI key | HFLKNINDVFJPQT-ZFAMMYHGSA-N |
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wwPDB Information |
Atom count
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71 (33 without Hydrogen)
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Polymer type
|
Bound ligand
|
Type description
|
NON-POLYMER
|
Type code
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HETAIN
|
Is modified
|
No
|
Standard parent
|
Not Assigned
|
Defined at
|
2016-12-15
|
Last modified at
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2017-10-27
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Status
|
Released
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Obsoleted
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Not Assigned
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|
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827 : Atoms of Molecule
Total Number of Atoms: 71
Record |
Atom Name |
Symbol |
PDB Name |
Stereochemistry |
Is Aromatic |
Is Leaving Atom |
Charge |
X-Coordinate |
Y-Coordinate |
Z-Coordinate |
1 |
C13 |
C |
C1 |
S |
N |
N |
0 |
-2.694 |
1.095 |
-0.266 |
2 |
C15 |
C |
C2 |
R |
N |
N |
0 |
-4.652 |
-0.182 |
-0.804 |
3 |
C20 |
C |
C3 |
R |
N |
N |
0 |
-4.827 |
1.61 |
0.925 |
4 |
C22 |
C |
C4 |
R |
N |
N |
0 |
-3.535 |
2.21 |
0.361 |
5 |
C24 |
C |
C5 |
S |
N |
N |
0 |
-1.494 |
-2.091 |
1.096 |
6 |
C02 |
C |
C6 |
R |
N |
N |
0 |
4.641 |
1.422 |
-1.204 |
7 |
C04 |
C |
C7 |
N |
N |
N |
0 |
3.281 |
0.925 |
-1.703 |
8 |
C06 |
C |
C8 |
R |
N |
N |
0 |
3.458 |
-1.088 |
-0.411 |
9 |
C11 |
C |
C9 |
R |
N |
N |
0 |
-1.321 |
-0.776 |
0.332 |
10 |
O17 |
O |
O1 |
N |
N |
N |
0 |
-4.557 |
-1.943 |
-2.457 |
11 |
C18 |
C |
C10 |
S |
N |
N |
0 |
-5.571 |
0.882 |
-0.199 |
12 |
C27 |
C |
C11 |
R |
N |
N |
0 |
0.967 |
-2.496 |
0.957 |
13 |
C09 |
C |
C12 |
S |
N |
N |
0 |
0.06 |
-0.191 |
0.632 |
14 |
C31 |
C |
C13 |
R |
N |
N |
0 |
4.9 |
0.857 |
0.196 |
15 |
C01 |
C |
C14 |
N |
N |
N |
0 |
4.637 |
2.951 |
-1.148 |
16 |
C16 |
C |
C15 |
N |
N |
N |
0 |
-5.367 |
-0.873 |
-1.967 |
17 |
O14 |
O |
O2 |
N |
N |
N |
0 |
-3.457 |
0.439 |
-1.281 |
18 |
O12 |
O |
O3 |
N |
N |
N |
0 |
-2.33 |
0.149 |
0.742 |
19 |
C26 |
C |
C16 |
N |
N |
N |
0 |
-0.414 |
-3.082 |
0.658 |
20 |
C08 |
C |
C17 |
S |
N |
N |
0 |
1.14 |
-1.182 |
0.193 |
21 |
O10 |
O |
O4 |
N |
N |
N |
0 |
0.223 |
1.037 |
-0.081 |
22 |
O07 |
O |
O5 |
N |
N |
N |
0 |
2.431 |
-0.635 |
0.474 |
23 |
C29 |
C |
C18 |
R |
N |
N |
0 |
4.825 |
-0.672 |
0.139 |
24 |
O05 |
O |
O6 |
N |
N |
N |
0 |
3.268 |
-0.504 |
-1.701 |
25 |
O03 |
O |
O7 |
N |
N |
N |
0 |
5.666 |
0.979 |
-2.096 |
26 |
N32 |
N |
N1 |
N |
N |
N |
0 |
6.234 |
1.269 |
0.652 |
27 |
C33 |
C |
C19 |
N |
N |
N |
0 |
6.307 |
1.285 |
2.119 |
28 |
O30 |
O |
O8 |
N |
N |
N |
0 |
4.994 |
-1.207 |
1.454 |
29 |
N28 |
N |
N2 |
N |
N |
N |
0 |
2.004 |
-3.448 |
0.536 |
30 |
N25 |
N |
N3 |
N |
N |
N |
0 |
-2.821 |
-2.653 |
0.808 |
31 |
N23 |
N |
N4 |
N |
N |
N |
0 |
-2.776 |
2.847 |
1.446 |
32 |
O21 |
O |
O9 |
N |
N |
N |
0 |
-5.651 |
2.654 |
1.447 |
33 |
O19 |
O |
O10 |
N |
N |
N |
0 |
-6.742 |
0.256 |
0.331 |
34 |
H1 |
H |
H1 |
N |
N |
N |
0 |
-1.794 |
1.522 |
-0.706 |
35 |
H2 |
H |
H2 |
N |
N |
N |
0 |
-4.4 |
-0.92 |
-0.043 |
36 |
H3 |
H |
H3 |
N |
N |
N |
0 |
-4.585 |
0.904 |
1.72 |
37 |
H4 |
H |
H4 |
N |
N |
N |
0 |
-3.78 |
2.953 |
-0.398 |
38 |
H5 |
H |
H5 |
N |
N |
N |
0 |
-1.403 |
-1.904 |
2.166 |
39 |
H6 |
H |
H6 |
N |
N |
N |
0 |
2.495 |
1.296 |
-1.045 |
40 |
H7 |
H |
H7 |
N |
N |
N |
0 |
3.11 |
1.289 |
-2.716 |
41 |
H8 |
H |
H8 |
N |
N |
N |
0 |
3.414 |
-2.174 |
-0.493 |
42 |
H9 |
H |
H9 |
N |
N |
N |
0 |
-1.412 |
-0.963 |
-0.738 |
43 |
H10 |
H |
H10 |
N |
N |
N |
0 |
-4.949 |
-2.427 |
-3.196 |
44 |
H11 |
H |
H11 |
N |
N |
N |
0 |
-5.857 |
1.598 |
-0.97 |
45 |
H12 |
H |
H12 |
N |
N |
N |
0 |
1.058 |
-2.31 |
2.027 |
46 |
H13 |
H |
H13 |
N |
N |
N |
0 |
0.152 |
-0.004 |
1.702 |
47 |
H14 |
H |
H14 |
N |
N |
N |
0 |
4.146 |
1.234 |
0.886 |
48 |
H15 |
H |
H15 |
N |
N |
N |
0 |
4.449 |
3.351 |
-2.144 |
49 |
H16 |
H |
H16 |
N |
N |
N |
0 |
3.854 |
3.287 |
-0.468 |
50 |
H17 |
H |
H17 |
N |
N |
N |
0 |
5.604 |
3.303 |
-0.791 |
51 |
H18 |
H |
H18 |
N |
N |
N |
0 |
-6.323 |
-1.269 |
-1.622 |
52 |
H19 |
H |
H19 |
N |
N |
N |
0 |
-5.541 |
-0.153 |
-2.766 |
53 |
H20 |
H |
H20 |
N |
N |
N |
0 |
-0.538 |
-4.018 |
1.202 |
54 |
H21 |
H |
H21 |
N |
N |
N |
0 |
-0.506 |
-3.269 |
-0.412 |
55 |
H22 |
H |
H22 |
N |
N |
N |
0 |
1.049 |
-1.369 |
-0.877 |
56 |
H23 |
H |
H23 |
N |
N |
N |
0 |
1.033 |
1.515 |
0.139 |
57 |
H24 |
H |
H24 |
N |
N |
N |
0 |
5.611 |
-1.051 |
-0.513 |
58 |
H25 |
H |
H25 |
N |
N |
N |
0 |
5.562 |
1.296 |
-3.003 |
59 |
H26 |
H |
H26 |
N |
N |
N |
0 |
6.487 |
2.167 |
0.268 |
60 |
H28 |
H |
H28 |
N |
N |
N |
0 |
5.572 |
1.987 |
2.512 |
61 |
H32 |
H |
H32 |
N |
N |
N |
0 |
1.911 |
-4.325 |
1.027 |
62 |
H29 |
H |
H29 |
N |
N |
N |
0 |
6.099 |
0.286 |
2.504 |
63 |
H30 |
H |
H30 |
N |
N |
N |
0 |
7.306 |
1.593 |
2.43 |
64 |
H31 |
H |
H31 |
N |
N |
N |
0 |
4.952 |
-2.172 |
1.494 |
65 |
H33 |
H |
H33 |
N |
N |
N |
0 |
1.982 |
-3.588 |
-0.463 |
66 |
H35 |
H |
H35 |
N |
N |
N |
0 |
-2.919 |
-3.572 |
1.212 |
67 |
H36 |
H |
H36 |
N |
N |
N |
0 |
-3.552 |
-2.036 |
1.129 |
68 |
H38 |
H |
H38 |
N |
N |
N |
0 |
-1.916 |
3.246 |
1.099 |
69 |
H39 |
H |
H39 |
N |
N |
N |
0 |
-3.334 |
3.543 |
1.917 |
70 |
H41 |
H |
H41 |
N |
N |
N |
0 |
-6.489 |
2.345 |
1.818 |
71 |
H42 |
H |
H42 |
N |
N |
N |
0 |
-7.261 |
-0.228 |
-0.326 |
827 : Chemical Bonds
Total Number of Bonds: 73
827 : Used in PDB Entries
Total Number of PDB Entries: 1
Ligand Code |
PDB Entry ID |
Type |
Total |
Distinct |
827 |
5u19 |
Bound ligand
|
1 |
1 |
|