![spacer](http://www.ebi.ac.uk/inc/images/spacer.gif) |
T2S : Summary
Code ![](/pdbe/static/images/help.png)
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T2S
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One-letter code ![](/pdbe/static/images/help.png)
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T
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Molecule name ![](/pdbe/static/images/help.png)
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THYMIDINE-5'-DITHIOPHOSPHORATE
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Systematic names ![](/pdbe/static/images/help.png)
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Formula ![](/pdbe/static/images/help.png)
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C10 H15 N2 O6 P S2
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Formal charge ![](/pdbe/static/images/help.png)
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0
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Molecular weight ![](/pdbe/static/images/help.png)
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354.34 Da
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SMILES ![](/pdbe/static/images/help.png)
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Type | Program | Version | Descriptor |
SMILES
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ACDLabs |
10.04 |
O=C1NC(=O)N(C=C1C)C2OC(C(O)C2)COP(=S)(O)S |
SMILES
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CACTVS |
3.341 |
CC1=CN([CH]2C[CH](O)[CH](CO[P](O)(S)=S)O2)C(=O)NC1=O |
SMILES
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OpenEye OEToolkits |
1.5.0 |
CC1=CN(C(=O)NC1=O)C2CC(C(O2)COP(=S)(O)S)O |
Canonical SMILES
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CACTVS |
3.341 |
CC1=CN([C@H]2C[C@H](O)[C@@H](CO[P@](O)(S)=S)O2)C(=O)NC1=O |
Canonical SMILES
|
OpenEye OEToolkits |
1.5.0 |
CC1=CN(C(=O)NC1=O)[C@H]2C[C@@H]([C@H](O2)CO[P@](=S)(O)S)O |
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IUPAC InChI ![](/pdbe/static/images/help.png) | InChI=1S/C10H15N2O6PS2/c1-5-3-12(10(15)11-9(5)14)8-2-6(13)7(18-8)4-17-19(16,20)21/h3,6-8,13H,2,4H2,1H3,(H,11,14,15)(H2,16,20,21)/t6-,7+,8+/m0/s1 |
IUPAC InChI key ![](/pdbe/static/images/help.png) | KMPXQZWMYQHTNT-XLPZGREQSA-N |
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wwPDB Information |
Atom count ![](/pdbe/static/images/help.png)
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36 (21 without Hydrogen)
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Polymer type ![](/pdbe/static/images/help.png)
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Deoxy ribonucleotide
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Type description ![](/pdbe/static/images/help.png)
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DNA LINKING
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Type code ![](/pdbe/static/images/help.png)
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ATOMN
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Is modified ![](/pdbe/static/images/help.png)
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Yes
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Standard parent ![](/pdbe/static/images/help.png)
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DT
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Defined at ![](/pdbe/static/images/help.png)
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2001-11-02
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Last modified at ![](/pdbe/static/images/help.png)
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2022-06-13
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Status ![](/pdbe/static/images/help.png)
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Released
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Obsoleted ![](/pdbe/static/images/help.png)
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Not Assigned
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T2S : Atoms of Molecule
Total Number of Atoms: 36
Record |
Atom Name |
Symbol |
PDB Name |
Stereochemistry |
Is Aromatic |
Is Leaving Atom |
Charge |
X-Coordinate |
Y-Coordinate |
Z-Coordinate |
1 |
OP3 |
O |
O3P |
N |
N |
Y |
0 |
-4.058 |
-2.262 |
4.783 |
2 |
P |
P |
P |
S |
N |
N |
0 |
-4.096 |
-1.131 |
3.606 |
3 |
S1P |
S |
S1P |
N |
N |
N |
0 |
-4.869 |
0.537 |
4.277 |
4 |
S2P |
S |
S2P |
N |
N |
N |
0 |
-5.0 |
-2.081 |
1.942 |
5 |
O5' |
O |
O5* |
N |
N |
N |
0 |
-2.493 |
-1.028 |
3.315 |
6 |
C5' |
C |
C5* |
N |
N |
N |
0 |
-2.005 |
-0.136 |
2.327 |
7 |
C4' |
C |
C4* |
R |
N |
N |
0 |
-0.611 |
0.328 |
2.728 |
8 |
O4' |
O |
O4* |
N |
N |
N |
0 |
0.247 |
-0.829 |
2.764 |
9 |
C3' |
C |
C3* |
S |
N |
N |
0 |
0.008 |
1.286 |
1.72 |
10 |
O3' |
O |
O3* |
N |
N |
N |
0 |
0.965 |
2.121 |
2.368 |
11 |
C2' |
C |
C2* |
N |
N |
N |
0 |
0.71 |
0.36 |
0.754 |
12 |
C1' |
C |
C1* |
R |
N |
N |
0 |
1.157 |
-0.778 |
1.657 |
13 |
N1 |
N |
N1 |
N |
N |
N |
0 |
1.164 |
-2.047 |
0.989 |
14 |
C2 |
C |
C2 |
N |
N |
N |
0 |
2.333 |
-2.544 |
0.374 |
15 |
O2 |
O |
O2 |
N |
N |
N |
0 |
3.41 |
-1.945 |
0.363 |
16 |
N3 |
N |
N3 |
N |
N |
N |
0 |
2.194 |
-3.793 |
-0.24 |
17 |
C4 |
C |
C4 |
N |
N |
N |
0 |
1.047 |
-4.57 |
-0.3 |
18 |
O4 |
O |
O4 |
N |
N |
N |
0 |
0.995 |
-5.663 |
-0.857 |
19 |
C5 |
C |
C5 |
N |
N |
N |
0 |
-0.143 |
-3.98 |
0.369 |
20 |
C5M |
C |
C5M |
N |
N |
N |
0 |
-1.42 |
-4.757 |
0.347 |
21 |
C6 |
C |
C6 |
N |
N |
N |
0 |
-0.013 |
-2.784 |
0.958 |
22 |
HOP3 |
H |
3HOP |
N |
N |
N |
0 |
-3.741 |
-1.998 |
5.673 |
23 |
HOP2 |
H |
2HOP |
N |
N |
N |
0 |
-5.372 |
-3.212 |
2.558 |
24 |
H5' |
H |
1H5* |
N |
N |
N |
0 |
-1.971 |
-0.654 |
1.366 |
25 |
H5'' |
H |
2H5* |
N |
N |
N |
0 |
-2.683 |
0.718 |
2.254 |
26 |
H4' |
H |
H4* |
N |
N |
N |
0 |
-0.644 |
0.753 |
3.736 |
27 |
H3' |
H |
H3* |
N |
N |
N |
0 |
-0.722 |
1.941 |
1.236 |
28 |
HO3' |
H |
H3T |
N |
N |
Y |
0 |
0.743 |
3.042 |
2.146 |
29 |
H2' |
H |
1H2* |
N |
N |
N |
0 |
-0.003 |
-0.001 |
0.003 |
30 |
H2'' |
H |
2H2* |
N |
N |
N |
0 |
1.556 |
0.818 |
0.232 |
31 |
H1' |
H |
H1* |
N |
N |
N |
0 |
2.163 |
-0.604 |
2.054 |
32 |
H3 |
H |
H3 |
N |
N |
N |
0 |
3.023 |
-4.171 |
-0.689 |
33 |
H71 |
H |
1H5M |
N |
N |
N |
0 |
-1.735 |
-4.916 |
-0.683 |
34 |
H72 |
H |
2H5M |
N |
N |
N |
0 |
-2.195 |
-4.208 |
0.881 |
35 |
H73 |
H |
3H5M |
N |
N |
N |
0 |
-1.272 |
-5.721 |
0.833 |
36 |
H6 |
H |
H6 |
N |
N |
N |
0 |
-0.857 |
-2.318 |
1.458 |
T2S : Chemical Bonds
Total Number of Bonds: 37
T2S : Used in PDB Entries
Total Number of PDB Entries: 1
Ligand Code |
PDB Entry ID |
Type |
Total |
Distinct |
T2S |
1k8l ![Open in New Window](/pdbe-srv/pdbechem/images/newwin.png?_debugResources=y&n=1723531446406) |
Polymer component
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1 |
1 |
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