NP-MRD: Showing NP-Card for methyl (6e)-7-hydroxy-6-(hydroxymethylidene)-4,9-dioxo-10h-phenazine-1-carboxylate (NP0230633)

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Record Information

Version

2.0

Created at

2022-09-06 11:08:52 UTC

Updated at

2022-09-06 11:08:52 UTC

NP-MRD ID

NP0230633

Secondary Accession Numbers

None

Natural Product Identification

Common Name

methyl (6e)-7-hydroxy-6-(hydroxymethylidene)-4,9-dioxo-10h-phenazine-1-carboxylate

Description

Lomondomycin, also known as lomofungin, belongs to the class of organic compounds known as phenazines and derivatives. These are polycyclic aromatic compounds containing a phenazine moiety, which is a linear tricyclic system that consists of a two benzene rings joined by a pyrazine ring. methyl (6e)-7-hydroxy-6-(hydroxymethylidene)-4,9-dioxo-10h-phenazine-1-carboxylate is found in Streptomyces lomondensis. Based on a literature review very few articles have been published on Lomondomycin.

Structure

MOL 3D MOL SDF PDB SMILES InChI

     RDKit          3D

 33 35  0  0  0  0  0  0  0  0999 V2000
    4.7939   -0.3336    0.0437 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.3920   -0.4749    0.0308 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.8125   -1.6829   -0.2257 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.6567   -2.6358   -0.4432 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.4024   -1.9915   -0.2746 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.0274   -3.3385   -0.4025 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.2732   -3.7665   -0.4428 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2511   -2.8074   -0.3514 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4582   -3.1494   -0.3833 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9094   -1.4698   -0.2246 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8565   -0.5190   -0.1390 N   0  0  0  0  0  0  0  0  0  0  0  0
   -1.5619    0.7884   -0.0206 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5418    1.7600    0.0658 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.7936    1.3355    0.0279 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.0754   -0.0106   -0.0920 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2266    3.0968    0.1856 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.2488    4.0610    0.2713 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9186    3.5330    0.2253 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.0619    2.5602    0.1389 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.2657    2.9425    0.1738 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.2523    1.2112    0.0180 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7042    0.2698   -0.0664 N   0  0  0  0  0  0  0  0  0  0  0  0
    0.4225   -1.0394   -0.1844 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.1855   -1.2737    0.5339 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.1563   -0.3122   -1.0011 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.1641    0.5199    0.6174 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.8062   -4.1077   -0.4753 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5072   -4.8302   -0.5439 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.6052    2.0354    0.0900 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.3309   -0.6166    0.6787 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.0325    5.0449    0.3594 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6895    4.5859    0.3190 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.6812    0.6152   -0.0406 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0
  2  3  1  0
  3  4  2  0
  3  5  1  0
  5 23  2  0
 23 22  1  0
 22 21  1  0
 21 12  2  0
 12 11  1  0
 11 10  2  0
 10  8  1  0
  8  9  2  0
  8  7  1  0
  7  6  2  0
 12 13  1  0
 13 14  2  0
 14 15  1  0
 13 16  1  0
 16 17  1  0
 16 18  2  0
 18 19  1  0
 19 20  2  0
  6  5  1  0
 10 23  1  0
 19 21  1  0
  1 24  1  0
  1 25  1  0
  1 26  1  0
 22 33  1  0
  7 28  1  0
  6 27  1  0
 14 29  1  0
 15 30  1  0
 17 31  1  0
 18 32  1  0
M  END


  Mrv1652309062213082D          

 23 25  0  0  0  0            999 V2000
    1.4289   -4.9500    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4289   -4.1250    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.1434   -3.7125    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.8579   -4.1250    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.1434   -2.8875    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4289   -2.4750    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4289   -1.6500    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.1434   -1.2375    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.1434   -0.4125    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.8579   -1.6500    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.5724   -1.2375    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    4.2868   -1.6500    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.0013   -1.2375    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.0013   -0.4125    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.2868    0.0000    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    5.7158   -1.6500    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.4302   -1.2375    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    5.7158   -2.4750    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.0013   -2.8875    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.0013   -3.7125    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.2868   -2.4750    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.5724   -2.8875    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    2.8579   -2.4750    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0  0  0  0
  2  3  1  0  0  0  0
  3  4  2  0  0  0  0
  3  5  1  0  0  0  0
  5  6  1  0  0  0  0
  6  7  2  0  0  0  0
  7  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  1  0  0  0  0
 13 14  2  0  0  0  0
 14 15  1  0  0  0  0
 13 16  1  0  0  0  0
 16 17  1  0  0  0  0
 16 18  2  0  0  0  0
 18 19  1  0  0  0  0
 19 20  2  0  0  0  0
 19 21  1  0  0  0  0
 12 21  2  0  0  0  0
 21 22  1  0  0  0  0
 22 23  1  0  0  0  0
  5 23  2  0  0  0  0
 10 23  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0230633

> <DATABASE_NAME>
NP-MRD

> <SMILES>
COC(=O)C1=C2NC3=C(N=C2C(=O)C=C1)\C(=C/O)C(O)=CC3=O

> <INCHI_IDENTIFIER>
InChI=1S/C15H10N2O6/c1-23-15(22)6-2-3-8(19)13-11(6)16-14-10(21)4-9(20)7(5-18)12(14)17-13/h2-5,16,18,20H,1H3/b7-5-

> <INCHI_KEY>
YDXARWIJAYOANV-ALCCZGGFSA-N

> <FORMULA>
C15H10N2O6

> <MOLECULAR_WEIGHT>
314.253

> <EXACT_MASS>
314.05388605

> <JCHEM_ACCEPTOR_COUNT>
7

> <JCHEM_ATOM_COUNT>
33

> <JCHEM_AVERAGE_POLARIZABILITY>
29.642227658793033

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
3

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
methyl (6E)-7-hydroxy-6-(hydroxymethylidene)-4,9-dioxo-4,6,9,10-tetrahydrophenazine-1-carboxylate

> <JCHEM_LOGP>
-0.24850424940446017

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
3

> <JCHEM_PHYSIOLOGICAL_CHARGE>
-1

> <JCHEM_PKA>
8.65951110190833

> <JCHEM_PKA_STRONGEST_ACIDIC>
3.4891391131762313

> <JCHEM_PKA_STRONGEST_BASIC>
1.5829228227070564

> <JCHEM_POLAR_SURFACE_AREA>
125.29000000000002

> <JCHEM_REFRACTIVITY>
83.26779999999998

> <JCHEM_ROTATABLE_BOND_COUNT>
2

> <JCHEM_RULE_OF_FIVE>
1

> <JCHEM_TRADITIONAL_IUPAC>
methyl (6E)-7-hydroxy-6-(hydroxymethylidene)-4,9-dioxo-10H-phenazine-1-carboxylate

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 06-SEP-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   06-SEP-22         0                                  
HETATM    1  C   UNK     0       2.667  -9.240   0.000  0.00  0.00           C+0
HETATM    2  O   UNK     0       2.667  -7.700   0.000  0.00  0.00           O+0
HETATM    3  C   UNK     0       4.001  -6.930   0.000  0.00  0.00           C+0
HETATM    4  O   UNK     0       5.335  -7.700   0.000  0.00  0.00           O+0
HETATM    5  C   UNK     0       4.001  -5.390   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       2.667  -4.620   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       2.667  -3.080   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0       4.001  -2.310   0.000  0.00  0.00           C+0
HETATM    9  O   UNK     0       4.001  -0.770   0.000  0.00  0.00           O+0
HETATM   10  C   UNK     0       5.335  -3.080   0.000  0.00  0.00           C+0
HETATM   11  N   UNK     0       6.668  -2.310   0.000  0.00  0.00           N+0
HETATM   12  C   UNK     0       8.002  -3.080   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0       9.336  -2.310   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0       9.336  -0.770   0.000  0.00  0.00           C+0
HETATM   15  O   UNK     0       8.002   0.000   0.000  0.00  0.00           O+0
HETATM   16  C   UNK     0      10.669  -3.080   0.000  0.00  0.00           C+0
HETATM   17  O   UNK     0      12.003  -2.310   0.000  0.00  0.00           O+0
HETATM   18  C   UNK     0      10.669  -4.620   0.000  0.00  0.00           C+0
HETATM   19  C   UNK     0       9.336  -5.390   0.000  0.00  0.00           C+0
HETATM   20  O   UNK     0       9.336  -6.930   0.000  0.00  0.00           O+0
HETATM   21  C   UNK     0       8.002  -4.620   0.000  0.00  0.00           C+0
HETATM   22  N   UNK     0       6.668  -5.390   0.000  0.00  0.00           N+0
HETATM   23  C   UNK     0       5.335  -4.620   0.000  0.00  0.00           C+0
CONECT    1    2                                                            
CONECT    2    1    3                                                       
CONECT    3    2    4    5                                                  
CONECT    4    3                                                            
CONECT    5    3    6   23                                                  
CONECT    6    5    7                                                       
CONECT    7    6    8                                                       
CONECT    8    7    9   10                                                  
CONECT    9    8                                                            
CONECT   10    8   11   23                                                  
CONECT   11   10   12                                                       
CONECT   12   11   13   21                                                  
CONECT   13   12   14   16                                                  
CONECT   14   13   15                                                       
CONECT   15   14                                                            
CONECT   16   13   17   18                                                  
CONECT   17   16                                                            
CONECT   18   16   19                                                       
CONECT   19   18   20   21                                                  
CONECT   20   19                                                            
CONECT   21   19   12   22                                                  
CONECT   22   21   23                                                       
CONECT   23   22    5   10                                                  
MASTER        0    0    0    0    0    0    0    0   23    0   50    0
END

View in JSmol

Synonyms

Value	Source
1-Carbomethoxy-5-formyl-4,6,8-trihydroxyphenazine	MeSH
Lomofungin	MeSH

Chemical Formula

C₁₅H₁₀N₂O₆

Average Mass

314.2530 Da

Monoisotopic Mass

314.05389 Da

IUPAC Name

methyl (6E)-7-hydroxy-6-(hydroxymethylidene)-4,9-dioxo-4,6,9,10-tetrahydrophenazine-1-carboxylate

Traditional Name

methyl (6E)-7-hydroxy-6-(hydroxymethylidene)-4,9-dioxo-10H-phenazine-1-carboxylate

CAS Registry Number

Not Available

SMILES

COC(=O)C1=C2NC3=C(N=C2C(=O)C=C1)\C(=C/O)C(O)=CC3=O

InChI Identifier

InChI=1S/C15H10N2O6/c1-23-15(22)6-2-3-8(19)13-11(6)16-14-10(21)4-9(20)7(5-18)12(14)17-13/h2-5,16,18,20H,1H3/b7-5-

InChI Key

YDXARWIJAYOANV-ALCCZGGFSA-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, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 100 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 252 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 1000 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 50 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 200 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 75 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 300 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 101 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 400 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 126 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 500 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 151 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 600 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 176 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 700 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 201 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 800 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 226 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 900 MHz, H₂O, 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 lomondensis	LOTUS Database	35616633

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as phenazines and derivatives. These are polycyclic aromatic compounds containing a phenazine moiety, which is a linear tricyclic system that consists of a two benzene rings joined by a pyrazine ring.

Kingdom

Organic compounds

Super Class

Organoheterocyclic compounds

Class

Diazanaphthalenes

Sub Class

Benzodiazines

Direct Parent

Phenazines and derivatives

Alternative Parents

Substituents

Phenazine
1-hydroxy-2-unsubstituted benzenoid
Benzenoid
Pyrazine
Heteroaromatic compound
Vinylogous amide
Vinylogous acid
Methyl ester
Carboxylic acid ester
Azacycle
Monocarboxylic acid or derivatives
Carboxylic acid derivative
Organic nitrogen compound
Organic oxygen compound
Organopnictogen compound
Organic oxide
Hydrocarbon derivative
Organooxygen compound
Organonitrogen compound
Aromatic heteropolycyclic compound

Molecular Framework

Aromatic heteropolycyclic 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	-0.25	ChemAxon
pKa (Strongest Acidic)	3.49	ChemAxon
pKa (Strongest Basic)	1.58	ChemAxon
Physiological Charge	-1	ChemAxon
Hydrogen Acceptor Count	7	ChemAxon
Hydrogen Donor Count	3	ChemAxon
Polar Surface Area	125.29 Å²	ChemAxon
Rotatable Bond Count	2	ChemAxon
Refractivity	83.27 m³·mol⁻¹	ChemAxon
Polarizability	29.64 Å³	ChemAxon
Number of Rings	3	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

HMDB ID

Not Available

DrugBank ID

Not Available

Phenol Explorer Compound ID

Not Available

FoodDB ID

Not Available

KNApSAcK ID

C00018764

Chemspider ID

Not Available

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

135457300

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

LOTUS database [Link]

Showing NP-Card for methyl (6e)-7-hydroxy-6-(hydroxymethylidene)-4,9-dioxo-10h-phenazine-1-carboxylate (NP0230633)

MOL for NP0230633 (methyl (6e)-7-hydroxy-6-(hydroxymethylidene)-4,9-dioxo-10h-phenazine-1-carboxylate)

3D MOL for NP0230633 (methyl (6e)-7-hydroxy-6-(hydroxymethylidene)-4,9-dioxo-10h-phenazine-1-carboxylate)

3D SDF for NP0230633 (methyl (6e)-7-hydroxy-6-(hydroxymethylidene)-4,9-dioxo-10h-phenazine-1-carboxylate)

3D-SDF for NP0230633 (methyl (6e)-7-hydroxy-6-(hydroxymethylidene)-4,9-dioxo-10h-phenazine-1-carboxylate)

PDB for NP0230633 (methyl (6e)-7-hydroxy-6-(hydroxymethylidene)-4,9-dioxo-10h-phenazine-1-carboxylate)

3D PDB for NP0230633 (methyl (6e)-7-hydroxy-6-(hydroxymethylidene)-4,9-dioxo-10h-phenazine-1-carboxylate)

SMILES for NP0230633 (methyl (6e)-7-hydroxy-6-(hydroxymethylidene)-4,9-dioxo-10h-phenazine-1-carboxylate)

INCHI for NP0230633 (methyl (6e)-7-hydroxy-6-(hydroxymethylidene)-4,9-dioxo-10h-phenazine-1-carboxylate)

Structure for NP0230633 (methyl (6e)-7-hydroxy-6-(hydroxymethylidene)-4,9-dioxo-10h-phenazine-1-carboxylate)

3D Structure for NP0230633 (methyl (6e)-7-hydroxy-6-(hydroxymethylidene)-4,9-dioxo-10h-phenazine-1-carboxylate)