NP-MRD: Showing NP-Card for Bhimamycin E (NP0005113)

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Record Information

Version

1.0

Created at

2020-12-09 02:27:27 UTC

Updated at

2021-07-15 16:51:05 UTC

NP-MRD ID

NP0005113

Secondary Accession Numbers

None

Natural Product Identification

Common Name

Bhimamycin E

Provided By

NPAtlas

Description

Bhimamycin E is found in Streptomyces sp. It was first documented in 2003 (PMID: 14763559). Based on a literature review very few articles have been published on 3-acetyl-5-hydroxy-2-(hydroxymethyl)-1,4-dihydronaphthalene-1,4-dione.

Structure

MOL 3D MOL SDF 3D SDF PDB SMILES InChI


  Mrv1652306242118163D          

 28 29  0  0  0  0            999 V2000
   -2.8420    2.2027   -0.1216 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6909    0.7157   -0.0102 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.7523    0.0587   -0.0213 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3494    0.1437    0.1012 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1303   -1.1424    0.2047 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1756   -2.1582    0.2236 C   0  0  2  0  0  0  0  0  0  0  0  0
   -2.0273   -3.0588   -0.8450 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.2690   -1.6710    0.3158 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.3969   -2.9187    0.4118 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.4055   -0.7702    0.3107 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.6912   -1.2812    0.4145 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.7486   -0.3954    0.4064 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.5523    0.9632    0.2989 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.2627    1.4317    0.1979 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.0238    2.7826    0.0887 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.1630    0.5831    0.2011 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1960    1.0863    0.0940 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.3635    2.3187   -0.0029 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3670    2.5710   -1.0507 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4714    2.6823    0.7791 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.9429    2.4245   -0.2648 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.2003   -1.8534    0.2384 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0325   -2.7339    1.2019 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.7674   -3.9541   -0.5552 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.8290   -2.3490    0.4982 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.7749   -0.7481    0.4853 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.4230    1.6344    0.2964 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.7690    3.4357    0.0809 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0  0  0  0
  2  3  2  0  0  0  0
  2  4  1  0  0  0  0
  4  5  2  0  0  0  0
  5  6  1  0  0  0  0
  6  7  1  0  0  0  0
  5  8  1  0  0  0  0
  8  9  2  0  0  0  0
  8 10  1  0  0  0  0
 10 11  2  0  0  0  0
 11 12  1  0  0  0  0
 12 13  2  0  0  0  0
 13 14  1  0  0  0  0
 14 15  1  0  0  0  0
 14 16  2  0  0  0  0
 16 17  1  0  0  0  0
 17 18  2  0  0  0  0
 17  4  1  0  0  0  0
 16 10  1  0  0  0  0
  1 19  1  0  0  0  0
  1 20  1  0  0  0  0
  1 21  1  0  0  0  0
  6 22  1  0  0  0  0
  6 23  1  0  0  0  0
  7 24  1  0  0  0  0
 11 25  1  0  0  0  0
 12 26  1  0  0  0  0
 13 27  1  0  0  0  0
 15 28  1  0  0  0  0
M  END


  Mrv1652306242118163D          

 28 29  0  0  0  0            999 V2000
   -2.8420    2.2027   -0.1216 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6909    0.7157   -0.0102 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.7523    0.0587   -0.0213 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3494    0.1437    0.1012 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1303   -1.1424    0.2047 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1756   -2.1582    0.2236 C   0  0  2  0  0  0  0  0  0  0  0  0
   -2.0273   -3.0588   -0.8450 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.2690   -1.6710    0.3158 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.3969   -2.9187    0.4118 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.4055   -0.7702    0.3107 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.6912   -1.2812    0.4145 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.7486   -0.3954    0.4064 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.5523    0.9632    0.2989 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.2627    1.4317    0.1979 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.0238    2.7826    0.0887 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.1630    0.5831    0.2011 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1960    1.0863    0.0940 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.3635    2.3187   -0.0029 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3670    2.5710   -1.0507 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4714    2.6823    0.7791 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.9429    2.4245   -0.2648 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.2003   -1.8534    0.2384 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0325   -2.7339    1.2019 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.7674   -3.9541   -0.5552 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.8290   -2.3490    0.4982 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.7749   -0.7481    0.4853 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.4230    1.6344    0.2964 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.7690    3.4357    0.0809 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0  0  0  0
  2  3  2  0  0  0  0
  2  4  1  0  0  0  0
  4  5  2  0  0  0  0
  5  6  1  0  0  0  0
  6  7  1  0  0  0  0
  5  8  1  0  0  0  0
  8  9  2  0  0  0  0
  8 10  1  0  0  0  0
 10 11  2  0  0  0  0
 11 12  1  0  0  0  0
 12 13  2  0  0  0  0
 13 14  1  0  0  0  0
 14 15  1  0  0  0  0
 14 16  2  0  0  0  0
 16 17  1  0  0  0  0
 17 18  2  0  0  0  0
 17  4  1  0  0  0  0
 16 10  1  0  0  0  0
  1 19  1  0  0  0  0
  1 20  1  0  0  0  0
  1 21  1  0  0  0  0
  6 22  1  0  0  0  0
  6 23  1  0  0  0  0
  7 24  1  0  0  0  0
 11 25  1  0  0  0  0
 12 26  1  0  0  0  0
 13 27  1  0  0  0  0
 15 28  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0005113

> <DATABASE_NAME>
NP-MRD

> <SMILES>
[H]OC1=C2C(=O)C(C(=O)C([H])([H])[H])=C(C(=O)C2=C([H])C([H])=C1[H])C([H])([H])O[H]

> <INCHI_IDENTIFIER>
InChI=1S/C13H10O5/c1-6(15)10-8(5-14)12(17)7-3-2-4-9(16)11(7)13(10)18/h2-4,14,16H,5H2,1H3

> <INCHI_KEY>
PLSLMDVCBUASJN-UHFFFAOYSA-N

> <FORMULA>
C13H10O5

> <MOLECULAR_WEIGHT>
246.218

> <EXACT_MASS>
246.052823422

> <JCHEM_ACCEPTOR_COUNT>
5

> <JCHEM_ATOM_COUNT>
28

> <JCHEM_AVERAGE_POLARIZABILITY>
23.744850858379166

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
2

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
3-acetyl-5-hydroxy-2-(hydroxymethyl)-1,4-dihydronaphthalene-1,4-dione

> <ALOGPS_LOGP>
1.70

> <JCHEM_LOGP>
0.8724005726666666

> <ALOGPS_LOGS>
-2.58

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
2

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
14.871725894640072

> <JCHEM_PKA_STRONGEST_ACIDIC>
7.759770269484716

> <JCHEM_PKA_STRONGEST_BASIC>
-2.8549061064827868

> <JCHEM_POLAR_SURFACE_AREA>
91.66999999999999

> <JCHEM_REFRACTIVITY>
63.921300000000016

> <JCHEM_ROTATABLE_BOND_COUNT>
2

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
6.55e-01 g/l

> <JCHEM_TRADITIONAL_IUPAC>
3-acetyl-5-hydroxy-2-(hydroxymethyl)naphthalene-1,4-dione

> <JCHEM_VEBER_RULE>
0

$$$$

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      -2.842   2.203  -0.122  0.00  0.00           C+0
HETATM    2  C   UNK     0      -2.691   0.716  -0.010  0.00  0.00           C+0
HETATM    3  O   UNK     0      -3.752   0.059  -0.021  0.00  0.00           O+0
HETATM    4  C   UNK     0      -1.349   0.144   0.101  0.00  0.00           C+0
HETATM    5  C   UNK     0      -1.130  -1.142   0.205  0.00  0.00           C+0
HETATM    6  C   UNK     0      -2.176  -2.158   0.224  0.00  0.00           C+0
HETATM    7  O   UNK     0      -2.027  -3.059  -0.845  0.00  0.00           O+0
HETATM    8  C   UNK     0       0.269  -1.671   0.316  0.00  0.00           C+0
HETATM    9  O   UNK     0       0.397  -2.919   0.412  0.00  0.00           O+0
HETATM   10  C   UNK     0       1.406  -0.770   0.311  0.00  0.00           C+0
HETATM   11  C   UNK     0       2.691  -1.281   0.415  0.00  0.00           C+0
HETATM   12  C   UNK     0       3.749  -0.395   0.406  0.00  0.00           C+0
HETATM   13  C   UNK     0       3.552   0.963   0.299  0.00  0.00           C+0
HETATM   14  C   UNK     0       2.263   1.432   0.198  0.00  0.00           C+0
HETATM   15  O   UNK     0       2.024   2.783   0.089  0.00  0.00           O+0
HETATM   16  C   UNK     0       1.163   0.583   0.201  0.00  0.00           C+0
HETATM   17  C   UNK     0      -0.196   1.086   0.094  0.00  0.00           C+0
HETATM   18  O   UNK     0      -0.364   2.319  -0.003  0.00  0.00           O+0
HETATM   19  H   UNK     0      -2.367   2.571  -1.051  0.00  0.00           H+0
HETATM   20  H   UNK     0      -2.471   2.682   0.779  0.00  0.00           H+0
HETATM   21  H   UNK     0      -3.943   2.425  -0.265  0.00  0.00           H+0
HETATM   22  H   UNK     0      -3.200  -1.853   0.238  0.00  0.00           H+0
HETATM   23  H   UNK     0      -2.033  -2.734   1.202  0.00  0.00           H+0
HETATM   24  H   UNK     0      -1.767  -3.954  -0.555  0.00  0.00           H+0
HETATM   25  H   UNK     0       2.829  -2.349   0.498  0.00  0.00           H+0
HETATM   26  H   UNK     0       4.775  -0.748   0.485  0.00  0.00           H+0
HETATM   27  H   UNK     0       4.423   1.634   0.296  0.00  0.00           H+0
HETATM   28  H   UNK     0       2.769   3.436   0.081  0.00  0.00           H+0
CONECT    1    2   19   20   21                                             
CONECT    2    1    3    4                                                  
CONECT    3    2                                                            
CONECT    4    2    5   17                                                  
CONECT    5    4    6    8                                                  
CONECT    6    5    7   22   23                                             
CONECT    7    6   24                                                       
CONECT    8    5    9   10                                                  
CONECT    9    8                                                            
CONECT   10    8   11   16                                                  
CONECT   11   10   12   25                                                  
CONECT   12   11   13   26                                                  
CONECT   13   12   14   27                                                  
CONECT   14   13   15   16                                                  
CONECT   15   14   28                                                       
CONECT   16   14   17   10                                                  
CONECT   17   16   18    4                                                  
CONECT   18   17                                                            
CONECT   19    1                                                            
CONECT   20    1                                                            
CONECT   21    1                                                            
CONECT   22    6                                                            
CONECT   23    6                                                            
CONECT   24    7                                                            
CONECT   25   11                                                            
CONECT   26   12                                                            
CONECT   27   13                                                            
CONECT   28   15                                                            
MASTER        0    0    0    0    0    0    0    0   28    0   58    0
END

View in JSmol View NMR Assignments

Synonyms

Not Available

Chemical Formula

C₁₃H₁₀O₅

Average Mass

246.2180 Da

Monoisotopic Mass

246.05282 Da

IUPAC Name

3-acetyl-5-hydroxy-2-(hydroxymethyl)-1,4-dihydronaphthalene-1,4-dione

Traditional Name

3-acetyl-5-hydroxy-2-(hydroxymethyl)naphthalene-1,4-dione

CAS Registry Number

Not Available

SMILES

CC(=O)C1=C(CO)C(=O)C2=C(C(O)=CC=C2)C1=O

InChI Identifier

InChI=1S/C13H10O5/c1-6(15)10-8(5-14)12(17)7-3-2-4-9(16)11(7)13(10)18/h2-4,14,16H,5H2,1H3

InChI Key

PLSLMDVCBUASJN-UHFFFAOYSA-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
Streptomyces sp.	NPAtlas	14763559

Species Where Detected

Species Name	Source	Reference
Streptomyces sp. GW32/698	KNApSAcK Database	22123792

Chemical Taxonomy

Classification

Not classified

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	1.7	ALOGPS
logP	0.87	ChemAxon
logS	-2.6	ALOGPS
pKa (Strongest Acidic)	7.76	ChemAxon
pKa (Strongest Basic)	-2.9	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	5	ChemAxon
Hydrogen Donor Count	2	ChemAxon
Polar Surface Area	91.67 Å²	ChemAxon
Rotatable Bond Count	2	ChemAxon
Refractivity	63.92 m³·mol⁻¹	ChemAxon
Polarizability	23.74 Å³	ChemAxon
Number of Rings	2	ChemAxon
Bioavailability	Yes	ChemAxon
Rule of Five	Yes	ChemAxon
Ghose Filter	Yes	ChemAxon
Veber's Rule	No	ChemAxon
MDDR-like Rule	No	ChemAxon

External Links

NPAtlas ID

NPA019949

HMDB ID

Not Available

DrugBank ID

Not Available

Phenol Explorer Compound ID

Not Available

FoodDB ID

Not Available

KNApSAcK ID

C00015010

Chemspider ID

8552683

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

10377240

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

Fotso S, Maskey RP, Grun-Wollny I, Schulz KP, Munk M, Laatsch H: Bhimamycin A to approximately E and bhimanone: isolation, structure elucidation and biological activity of novel quinone antibiotics from a terrestrial Streptomycete. J Antibiot (Tokyo). 2003 Nov;56(11):931-41. doi: 10.7164/antibiotics.56.931. [PubMed:14763559 ]

Showing NP-Card for Bhimamycin E (NP0005113)

MOL for NP0005113 (Bhimamycin E)

3D MOL for NP0005113 (Bhimamycin E)

3D SDF for NP0005113 (Bhimamycin E)

3D-SDF for NP0005113 (Bhimamycin E)

PDB for NP0005113 (Bhimamycin E)

3D PDB for NP0005113 (Bhimamycin E)

SMILES for NP0005113 (Bhimamycin E)

INCHI for NP0005113 (Bhimamycin E)

Structure for NP0005113 (Bhimamycin E)

3D Structure for NP0005113 (Bhimamycin E)