NP-MRD: Showing NP-Card for Thiolactomycin (NP0022021)

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Record Information

Version

2.0

Created at

2021-01-06 07:15:03 UTC

Updated at

2021-07-15 17:37:55 UTC

NP-MRD ID

NP0022021

Secondary Accession Numbers

None

Natural Product Identification

Common Name

Thiolactomycin

Provided By

NPAtlas

Description

Thiolactomycin is found in Nocardia. Thiolactomycin was first documented in 1982 (PMID: 7096195). Based on a literature review very few articles have been published on 4-Hydroxy-3,5-Dimethyl-5-(2-Methyl-Buta-1,3-Dienyl)-5h-Thiophen-2-One.

Structure

MOL 3D MOL SDF 3D SDF PDB SMILES InChI


  Mrv1652306242105203D          

 28 28  0  0  0  0            999 V2000
   -3.8833   -1.3262    0.4710 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6789   -1.1452    0.9632 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.7252   -0.1802    0.4195 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1106    0.5941   -0.7008 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5487   -0.0483    0.9547 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.4565    0.8322    0.5388 C   0  0  1  0  0  0  0  0  0  0  0  0
    0.2620    2.2011    0.0784 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.6600    0.9779    1.9507 S   0  0  0  0  0  0  0  0  0  0  0  0
    2.6083   -0.4753    1.4215 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.2536   -1.2075    2.1739 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.3758   -0.4773   -0.0015 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.3403   -1.2176   -0.9154 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.3387    0.1525   -0.4421 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.9899    0.2323   -1.8370 O   0  0  0  0  0  0  0  0  0  0  0  0
   -4.5949   -2.0352    0.8639 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.1856   -0.7326   -0.3749 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4081   -1.7675    1.8270 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.0149    1.2178   -0.4076 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5890   -0.1296   -1.4473 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.5024    1.2070   -1.2951 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.3342   -0.7075    1.8195 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.0303    2.8487    0.5530 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6978    2.7021    0.3727 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.5158    2.3870   -1.0130 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.2194   -0.6198   -1.1434 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.8383   -1.4756   -1.8715 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.6308   -2.1560   -0.4398 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.7541    0.3488   -2.5186 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  2  0  0  0  0
  2  3  1  0  0  0  0
  3  4  1  0  0  0  0
  3  5  2  0  0  0  0
  6  5  1  1  0  0  0
  6  7  1  0  0  0  0
  6  8  1  0  0  0  0
  8  9  1  0  0  0  0
  9 10  2  0  0  0  0
  9 11  1  0  0  0  0
 11 12  1  0  0  0  0
 11 13  2  0  0  0  0
 13 14  1  0  0  0  0
 13  6  1  0  0  0  0
  1 15  1  0  0  0  0
  1 16  1  0  0  0  0
  2 17  1  0  0  0  0
  4 18  1  0  0  0  0
  4 19  1  0  0  0  0
  4 20  1  0  0  0  0
  5 21  1  0  0  0  0
  7 22  1  0  0  0  0
  7 23  1  0  0  0  0
  7 24  1  0  0  0  0
 12 25  1  0  0  0  0
 12 26  1  0  0  0  0
 12 27  1  0  0  0  0
 14 28  1  0  0  0  0
M  END


  Mrv1652306242105203D          

 28 28  0  0  0  0            999 V2000
   -3.8833   -1.3262    0.4710 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6789   -1.1452    0.9632 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.7252   -0.1802    0.4195 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1106    0.5941   -0.7008 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5487   -0.0483    0.9547 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.4565    0.8322    0.5388 C   0  0  1  0  0  0  0  0  0  0  0  0
    0.2620    2.2011    0.0784 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.6600    0.9779    1.9507 S   0  0  0  0  0  0  0  0  0  0  0  0
    2.6083   -0.4753    1.4215 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.2536   -1.2075    2.1739 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.3758   -0.4773   -0.0015 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.3403   -1.2176   -0.9154 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.3387    0.1525   -0.4421 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.9899    0.2323   -1.8370 O   0  0  0  0  0  0  0  0  0  0  0  0
   -4.5949   -2.0352    0.8639 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.1856   -0.7326   -0.3749 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4081   -1.7675    1.8270 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.0149    1.2178   -0.4076 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5890   -0.1296   -1.4473 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.5024    1.2070   -1.2951 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.3342   -0.7075    1.8195 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.0303    2.8487    0.5530 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6978    2.7021    0.3727 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.5158    2.3870   -1.0130 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.2194   -0.6198   -1.1434 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.8383   -1.4756   -1.8715 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.6308   -2.1560   -0.4398 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.7541    0.3488   -2.5186 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  2  0  0  0  0
  2  3  1  0  0  0  0
  3  4  1  0  0  0  0
  3  5  2  0  0  0  0
  6  5  1  1  0  0  0
  6  7  1  0  0  0  0
  6  8  1  0  0  0  0
  8  9  1  0  0  0  0
  9 10  2  0  0  0  0
  9 11  1  0  0  0  0
 11 12  1  0  0  0  0
 11 13  2  0  0  0  0
 13 14  1  0  0  0  0
 13  6  1  0  0  0  0
  1 15  1  0  0  0  0
  1 16  1  0  0  0  0
  2 17  1  0  0  0  0
  4 18  1  0  0  0  0
  4 19  1  0  0  0  0
  4 20  1  0  0  0  0
  5 21  1  0  0  0  0
  7 22  1  0  0  0  0
  7 23  1  0  0  0  0
  7 24  1  0  0  0  0
 12 25  1  0  0  0  0
 12 26  1  0  0  0  0
 12 27  1  0  0  0  0
 14 28  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0022021

> <DATABASE_NAME>
NP-MRD

> <SMILES>
[H]OC1=C(C(=O)S[C@@]1(\C([H])=C(\C([H])=C([H])[H])C([H])([H])[H])C([H])([H])[H])C([H])([H])[H]

> <INCHI_IDENTIFIER>
InChI=1S/C11H14O2S/c1-5-7(2)6-11(4)9(12)8(3)10(13)14-11/h5-6,12H,1H2,2-4H3/b7-6+/t11-/m1/s1

> <INCHI_KEY>
SYQNUQSGEWNWKV-XUIVZRPNSA-N

> <FORMULA>
C11H14O2S

> <MOLECULAR_WEIGHT>
210.293

> <EXACT_MASS>
210.071450382

> <JCHEM_ACCEPTOR_COUNT>
2

> <JCHEM_ATOM_COUNT>
28

> <JCHEM_AVERAGE_POLARIZABILITY>
22.59569670531524

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
1

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
(5R)-4-hydroxy-3,5-dimethyl-5-[(1E)-2-methylbuta-1,3-dien-1-yl]-2,5-dihydrothiophen-2-one

> <ALOGPS_LOGP>
2.14

> <JCHEM_LOGP>
2.546785299666667

> <ALOGPS_LOGS>
-2.62

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
1

> <JCHEM_PHYSIOLOGICAL_CHARGE>
-1

> <JCHEM_PKA_STRONGEST_ACIDIC>
6.819141158584797

> <JCHEM_PKA_STRONGEST_BASIC>
-6.115252390870114

> <JCHEM_POLAR_SURFACE_AREA>
37.3

> <JCHEM_REFRACTIVITY>
62.011799999999994

> <JCHEM_ROTATABLE_BOND_COUNT>
2

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
4.99e-01 g/l

> <JCHEM_TRADITIONAL_IUPAC>
thiolactomycin

> <JCHEM_VEBER_RULE>
1

$$$$

HEADER    PROTEIN                                 24-JUN-21   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   24-JUN-21         0                                  
HETATM    1  C   UNK     0      -3.883  -1.326   0.471  0.00  0.00           C+0
HETATM    2  C   UNK     0      -2.679  -1.145   0.963  0.00  0.00           C+0
HETATM    3  C   UNK     0      -1.725  -0.180   0.420  0.00  0.00           C+0
HETATM    4  C   UNK     0      -2.111   0.594  -0.701  0.00  0.00           C+0
HETATM    5  C   UNK     0      -0.549  -0.048   0.955  0.00  0.00           C+0
HETATM    6  C   UNK     0       0.457   0.832   0.539  0.00  0.00           C+0
HETATM    7  C   UNK     0       0.262   2.201   0.078  0.00  0.00           C+0
HETATM    8  S   UNK     0       1.660   0.978   1.951  0.00  0.00           S+0
HETATM    9  C   UNK     0       2.608  -0.475   1.422  0.00  0.00           C+0
HETATM   10  O   UNK     0       3.254  -1.208   2.174  0.00  0.00           O+0
HETATM   11  C   UNK     0       2.376  -0.477  -0.002  0.00  0.00           C+0
HETATM   12  C   UNK     0       3.340  -1.218  -0.915  0.00  0.00           C+0
HETATM   13  C   UNK     0       1.339   0.153  -0.442  0.00  0.00           C+0
HETATM   14  O   UNK     0       0.990   0.232  -1.837  0.00  0.00           O+0
HETATM   15  H   UNK     0      -4.595  -2.035   0.864  0.00  0.00           H+0
HETATM   16  H   UNK     0      -4.186  -0.733  -0.375  0.00  0.00           H+0
HETATM   17  H   UNK     0      -2.408  -1.768   1.827  0.00  0.00           H+0
HETATM   18  H   UNK     0      -3.015   1.218  -0.408  0.00  0.00           H+0
HETATM   19  H   UNK     0      -2.589  -0.130  -1.447  0.00  0.00           H+0
HETATM   20  H   UNK     0      -1.502   1.207  -1.295  0.00  0.00           H+0
HETATM   21  H   UNK     0      -0.334  -0.708   1.819  0.00  0.00           H+0
HETATM   22  H   UNK     0       1.030   2.849   0.553  0.00  0.00           H+0
HETATM   23  H   UNK     0      -0.698   2.702   0.373  0.00  0.00           H+0
HETATM   24  H   UNK     0       0.516   2.387  -1.013  0.00  0.00           H+0
HETATM   25  H   UNK     0       4.219  -0.620  -1.143  0.00  0.00           H+0
HETATM   26  H   UNK     0       2.838  -1.476  -1.871  0.00  0.00           H+0
HETATM   27  H   UNK     0       3.631  -2.156  -0.440  0.00  0.00           H+0
HETATM   28  H   UNK     0       1.754   0.349  -2.519  0.00  0.00           H+0
CONECT    1    2   15   16                                                  
CONECT    2    1    3   17                                                  
CONECT    3    2    4    5                                                  
CONECT    4    3   18   19   20                                             
CONECT    5    3    6   21                                                  
CONECT    6    5    7    8   13                                             
CONECT    7    6   22   23   24                                             
CONECT    8    6    9                                                       
CONECT    9    8   10   11                                                  
CONECT   10    9                                                            
CONECT   11    9   12   13                                                  
CONECT   12   11   25   26   27                                             
CONECT   13   11   14    6                                                  
CONECT   14   13   28                                                       
CONECT   15    1                                                            
CONECT   16    1                                                            
CONECT   17    2                                                            
CONECT   18    4                                                            
CONECT   19    4                                                            
CONECT   20    4                                                            
CONECT   21    5                                                            
CONECT   22    7                                                            
CONECT   23    7                                                            
CONECT   24    7                                                            
CONECT   25   12                                                            
CONECT   26   12                                                            
CONECT   27   12                                                            
CONECT   28   14                                                            
MASTER        0    0    0    0    0    0    0    0   28    0   56    0
END

View in JSmol View NMR Assignments

Synonyms

Value	Source
5R-Thiolactomycin	ChEMBL
(5R)-Thiolactomycin	ChEMBL
(R)-(+)-Thiolactomycin	ChEMBL

Chemical Formula

C₁₁H₁₄O₂S

Average Mass

210.2930 Da

Monoisotopic Mass

210.07145 Da

IUPAC Name

(5R)-4-hydroxy-3,5-dimethyl-5-[(1E)-2-methylbuta-1,3-dien-1-yl]-2,5-dihydrothiophen-2-one

Traditional Name

thiolactomycin

CAS Registry Number

Not Available

SMILES

C\C(C=C)=C/[C@@]1(C)SC(=O)C(C)=C1O

InChI Identifier

InChI=1S/C11H14O2S/c1-5-7(2)6-11(4)9(12)8(3)10(13)14-11/h5-6,12H,1H2,2-4H3/b7-6+/t11-/m1/s1

InChI Key

SYQNUQSGEWNWKV-XUIVZRPNSA-N

Experimental Spectra

Not Available

Predicted Spectra

Spectrum Type	Description	Depositor ID	Depositor Organization	Depositor	Deposition Date	View
1D NMR	¹³C NMR Spectrum (1D, 25 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 100 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 252 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 1000 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 50 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 200 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 75 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 300 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 101 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 400 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 126 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 500 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 151 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 600 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 176 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 700 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 201 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 800 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 226 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 900 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum

Chemical Shift Submissions

Not Available

Species

Species of Origin

Species Name	Source	Reference
Nocardia	NPAtlas	7096195

Species Where Detected

Species Name	Source	Reference
Nocardia sp. No. 2-200	KNApSAcK Database	22123792

Chemical Taxonomy

Description

This compound belongs to the class of organic compounds known as dihydrothiophenes. These are compounds containing a dihydrothiophene moiety, which is a thiophene derivative with only one double bond.

Kingdom

Organic compounds

Super Class

Organoheterocyclic compounds

Class

Dihydrothiophenes

Sub Class

Not Available

Direct Parent

Dihydrothiophenes

Alternative Parents

Substituents

Vinylogous acid
Carbothioic s-lactone
2,5-dihydrothiophene
Thiocarboxylic acid ester
Thiocarboxylic acid or derivatives
Enol
Carboxylic acid derivative
Organic oxygen compound
Organic oxide
Hydrocarbon derivative
Organooxygen compound
Carbonyl group
Aliphatic heteromonocyclic compound

Molecular Framework

Aliphatic heteromonocyclic compounds

External Descriptors

Not Available

Physical Properties

State

Not Available

Experimental Properties

Property	Value	Reference
Melting Point	Not Available	Not Available
Boiling Point	Not Available	Not Available
Water Solubility	Not Available	Not Available
LogP	Not Available	Not Available

Predicted Properties

Property	Value	Source
logP	2.14	ALOGPS
logP	2.55	ChemAxon
logS	-2.6	ALOGPS
pKa (Strongest Acidic)	6.82	ChemAxon
pKa (Strongest Basic)	-6.1	ChemAxon
Physiological Charge	-1	ChemAxon
Hydrogen Acceptor Count	2	ChemAxon
Hydrogen Donor Count	1	ChemAxon
Polar Surface Area	37.3 Å²	ChemAxon
Rotatable Bond Count	2	ChemAxon
Refractivity	62.01 m³·mol⁻¹	ChemAxon
Polarizability	22.6 Å³	ChemAxon
Number of Rings	1	ChemAxon
Bioavailability	Yes	ChemAxon
Rule of Five	Yes	ChemAxon
Ghose Filter	Yes	ChemAxon
Veber's Rule	Yes	ChemAxon
MDDR-like Rule	No	ChemAxon

External Links

NPAtlas ID

NPA007080

HMDB ID

Not Available

DrugBank ID

DB04302

Phenol Explorer Compound ID

Not Available

FoodDB ID

Not Available

KNApSAcK ID

C00018418

Chemspider ID

16744232

KEGG Compound ID

C11165

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

135403829

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

Sasaki H, Oishi H, Hayashi T, Matsuura I, Ando K, Sawada M: Thiolactomycin, a new antibiotic. II. Structure elucidation. J Antibiot (Tokyo). 1982 Apr;35(4):396-400. doi: 10.7164/antibiotics.35.396. [PubMed:7096195 ]

Showing NP-Card for Thiolactomycin (NP0022021)

MOL for NP0022021 (Thiolactomycin)

3D MOL for NP0022021 (Thiolactomycin)

3D SDF for NP0022021 (Thiolactomycin)

3D-SDF for NP0022021 (Thiolactomycin)

PDB for NP0022021 (Thiolactomycin)

3D PDB for NP0022021 (Thiolactomycin)

SMILES for NP0022021 (Thiolactomycin)

INCHI for NP0022021 (Thiolactomycin)

Structure for NP0022021 (Thiolactomycin)

3D Structure for NP0022021 (Thiolactomycin)