NP-MRD: Showing NP-Card for 10-[(2s,3s,4r)-5-{[3,4-dihydroxy-5-(hydroxymethyl)oxolan-2-yl]oxy}-2,3,4-trihydroxypentyl]-4-hydroxy-7,8-dimethylbenzo[g]pteridin-2-one (NP0197824)

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Record Information

Version

2.0

Created at

2022-09-04 16:09:34 UTC

Updated at

2022-09-04 16:09:34 UTC

NP-MRD ID

NP0197824

Secondary Accession Numbers

None

Natural Product Identification

Common Name

10-[(2s,3s,4r)-5-{[3,4-dihydroxy-5-(hydroxymethyl)oxolan-2-yl]oxy}-2,3,4-trihydroxypentyl]-4-hydroxy-7,8-dimethylbenzo[g]pteridin-2-one

Description

Lampteroflavin belongs to the class of organic compounds known as flavins. Flavins are compounds containing a flavin (7,8-dimethyl-benzo[g]pteridine-2,4-dione) moiety, with a structure characterized by an isoalloaxzine tricyclic ring. 10-[(2s,3s,4r)-5-{[3,4-dihydroxy-5-(hydroxymethyl)oxolan-2-yl]oxy}-2,3,4-trihydroxypentyl]-4-hydroxy-7,8-dimethylbenzo[g]pteridin-2-one is found in Omphalotus japonicus. Based on a literature review very few articles have been published on Lampteroflavin.

Structure

MOL 3D MOL SDF PDB SMILES InChI


  Mrv1652309042218092D          

 36 39  0  0  1  0            999 V2000
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   -0.7145   -0.4125    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
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    0.7145    2.0625    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7145    2.8875    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
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M  END

     RDKit          3D

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M  END


  Mrv1652309042218092D          

 36 39  0  0  1  0            999 V2000
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M  END
> <DATABASE_ID>
NP0197824

> <DATABASE_NAME>
NP-MRD

> <SMILES>
CC1=C(C)C=C2N(C[C@H](O)[C@H](O)[C@H](O)COC3OC(CO)C(O)C3O)C3=NC(=O)N=C(O)C3=NC2=C1

> <INCHI_IDENTIFIER>
InChI=1S/C22H28N4O10/c1-8-3-10-11(4-9(8)2)26(19-15(23-10)20(33)25-22(34)24-19)5-12(28)16(30)13(29)7-35-21-18(32)17(31)14(6-27)36-21/h3-4,12-14,16-18,21,27-32H,5-7H2,1-2H3,(H,25,33,34)/t12-,13+,14?,16-,17?,18?,21?/m0/s1

> <INCHI_KEY>
KPRZMKIRTDUAFR-ZLVKUXRCSA-N

> <FORMULA>
C22H28N4O10

> <MOLECULAR_WEIGHT>
508.484

> <EXACT_MASS>
508.180543118

> <JCHEM_ACCEPTOR_COUNT>
14

> <JCHEM_ATOM_COUNT>
64

> <JCHEM_AVERAGE_POLARIZABILITY>
50.290082614400845

> <JCHEM_BIOAVAILABILITY>
0

> <JCHEM_DONOR_COUNT>
7

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
10-[(2S,3S,4R)-5-{[3,4-dihydroxy-5-(hydroxymethyl)oxolan-2-yl]oxy}-2,3,4-trihydroxypentyl]-4-hydroxy-7,8-dimethyl-2H,10H-benzo[g]pteridin-2-one

> <JCHEM_LOGP>
-1.6895401593333328

> <JCHEM_MDDR_LIKE_RULE>
1

> <JCHEM_NUMBER_OF_RINGS>
4

> <JCHEM_PHYSIOLOGICAL_CHARGE>
-1

> <JCHEM_PKA>
12.184685196263601

> <JCHEM_PKA_STRONGEST_ACIDIC>
4.453115132242171

> <JCHEM_PKA_STRONGEST_BASIC>
-2.684197995397289

> <JCHEM_POLAR_SURFACE_AREA>
217.45999999999995

> <JCHEM_REFRACTIVITY>
123.0409

> <JCHEM_ROTATABLE_BOND_COUNT>
8

> <JCHEM_RULE_OF_FIVE>
0

> <JCHEM_TRADITIONAL_IUPAC>
10-[(2S,3S,4R)-5-{[3,4-dihydroxy-5-(hydroxymethyl)oxolan-2-yl]oxy}-2,3,4-trihydroxypentyl]-4-hydroxy-7,8-dimethylbenzo[g]pteridin-2-one

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 04-SEP-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   04-SEP-22         0                                  
HETATM    1  C   UNK     0      -2.667  -1.540   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0      -1.334  -0.770   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0      -1.334   0.770   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0      -0.000   1.540   0.000  0.00  0.00           C+0
HETATM    5  N   UNK     0      -0.000   3.080   0.000  0.00  0.00           N+0
HETATM    6  C   UNK     0       1.334   3.850   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       1.334   5.390   0.000  0.00  0.00           C+0
HETATM    8  O   UNK     0       0.000   6.160   0.000  0.00  0.00           O+0
HETATM    9  N   UNK     0       2.667   6.160   0.000  0.00  0.00           N+0
HETATM   10  C   UNK     0       4.001   5.390   0.000  0.00  0.00           C+0
HETATM   11  O   UNK     0       5.335   6.160   0.000  0.00  0.00           O+0
HETATM   12  N   UNK     0       4.001   3.850   0.000  0.00  0.00           N+0
HETATM   13  C   UNK     0       2.667   3.080   0.000  0.00  0.00           C+0
HETATM   14  N   UNK     0       2.667   1.540   0.000  0.00  0.00           N+0
HETATM   15  C   UNK     0       4.001   0.770   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0       5.335   1.540   0.000  0.00  0.00           C+0
HETATM   17  O   UNK     0       5.335   3.080   0.000  0.00  0.00           O+0
HETATM   18  C   UNK     0       6.668   0.770   0.000  0.00  0.00           C+0
HETATM   19  O   UNK     0       6.668  -0.770   0.000  0.00  0.00           O+0
HETATM   20  C   UNK     0       8.002   1.540   0.000  0.00  0.00           C+0
HETATM   21  O   UNK     0       8.002   3.080   0.000  0.00  0.00           O+0
HETATM   22  C   UNK     0       9.336   0.770   0.000  0.00  0.00           C+0
HETATM   23  O   UNK     0      10.669   1.540   0.000  0.00  0.00           O+0
HETATM   24  C   UNK     0      12.003   0.770   0.000  0.00  0.00           C+0
HETATM   25  O   UNK     0      13.410   1.396   0.000  0.00  0.00           O+0
HETATM   26  C   UNK     0      14.440   0.252   0.000  0.00  0.00           C+0
HETATM   27  C   UNK     0      15.972   0.413   0.000  0.00  0.00           C+0
HETATM   28  O   UNK     0      16.598   1.820   0.000  0.00  0.00           O+0
HETATM   29  C   UNK     0      13.670  -1.082   0.000  0.00  0.00           C+0
HETATM   30  O   UNK     0      14.297  -2.489   0.000  0.00  0.00           O+0
HETATM   31  C   UNK     0      12.164  -0.762   0.000  0.00  0.00           C+0
HETATM   32  O   UNK     0      11.020  -1.792   0.000  0.00  0.00           O+0
HETATM   33  C   UNK     0       1.334   0.770   0.000  0.00  0.00           C+0
HETATM   34  C   UNK     0       1.334  -0.770   0.000  0.00  0.00           C+0
HETATM   35  C   UNK     0      -0.000  -1.540   0.000  0.00  0.00           C+0
HETATM   36  C   UNK     0      -0.000  -3.080   0.000  0.00  0.00           C+0
CONECT    1    2                                                            
CONECT    2    1    3   35                                                  
CONECT    3    2    4                                                       
CONECT    4    3    5   33                                                  
CONECT    5    4    6                                                       
CONECT    6    5    7   13                                                  
CONECT    7    6    8    9                                                  
CONECT    8    7                                                            
CONECT    9    7   10                                                       
CONECT   10    9   11   12                                                  
CONECT   11   10                                                            
CONECT   12   10   13                                                       
CONECT   13   12    6   14                                                  
CONECT   14   13   15   33                                                  
CONECT   15   14   16                                                       
CONECT   16   15   17   18                                                  
CONECT   17   16                                                            
CONECT   18   16   19   20                                                  
CONECT   19   18                                                            
CONECT   20   18   21   22                                                  
CONECT   21   20                                                            
CONECT   22   20   23                                                       
CONECT   23   22   24                                                       
CONECT   24   23   25   31                                                  
CONECT   25   24   26                                                       
CONECT   26   25   27   29                                                  
CONECT   27   26   28                                                       
CONECT   28   27                                                            
CONECT   29   26   30   31                                                  
CONECT   30   29                                                            
CONECT   31   29   24   32                                                  
CONECT   32   31                                                            
CONECT   33   14    4   34                                                  
CONECT   34   33   35                                                       
CONECT   35   34    2   36                                                  
CONECT   36   35                                                            
MASTER        0    0    0    0    0    0    0    0   36    0   78    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₂₂H₂₈N₄O₁₀

Average Mass

508.4840 Da

Monoisotopic Mass

508.18054 Da

IUPAC Name

10-[(2S,3S,4R)-5-{[3,4-dihydroxy-5-(hydroxymethyl)oxolan-2-yl]oxy}-2,3,4-trihydroxypentyl]-4-hydroxy-7,8-dimethyl-2H,10H-benzo[g]pteridin-2-one

Traditional Name

10-[(2S,3S,4R)-5-{[3,4-dihydroxy-5-(hydroxymethyl)oxolan-2-yl]oxy}-2,3,4-trihydroxypentyl]-4-hydroxy-7,8-dimethylbenzo[g]pteridin-2-one

CAS Registry Number

Not Available

SMILES

CC1=C(C)C=C2N(C[C@H](O)[C@H](O)[C@H](O)COC3OC(CO)C(O)C3O)C3=NC(=O)N=C(O)C3=NC2=C1

InChI Identifier

InChI=1S/C22H28N4O10/c1-8-3-10-11(4-9(8)2)26(19-15(23-10)20(33)25-22(34)24-19)5-12(28)16(30)13(29)7-35-21-18(32)17(31)14(6-27)36-21/h3-4,12-14,16-18,21,27-32H,5-7H2,1-2H3,(H,25,33,34)/t12-,13+,14?,16-,17?,18?,21?/m0/s1

InChI Key

KPRZMKIRTDUAFR-ZLVKUXRCSA-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
Lampteromyces japonicus	LOTUS Database	35616633

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as flavins. Flavins are compounds containing a flavin (7,8-dimethyl-benzo[g]pteridine-2,4-dione) moiety, with a structure characterized by an isoalloaxzine tricyclic ring.

Kingdom

Organic compounds

Super Class

Organoheterocyclic compounds

Class

Pteridines and derivatives

Sub Class

Alloxazines and isoalloxazines

Direct Parent

Flavins

Alternative Parents

Substituents

Flavin
O-glycosyl compound
Glycosyl compound
Diazanaphthalene
Quinoxaline
Pentose monosaccharide
Hydroxypyrimidine
Pyrimidone
Benzenoid
Pyrimidine
Pyrazine
Monosaccharide
Heteroaromatic compound
Tetrahydrofuran
Secondary alcohol
Oxacycle
Azacycle
Polyol
Acetal
Organic nitrogen compound
Organic oxygen compound
Organopnictogen compound
Organic oxide
Hydrocarbon derivative
Primary alcohol
Organooxygen compound
Organonitrogen compound
Alcohol
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	-1.7	ChemAxon
pKa (Strongest Acidic)	4.45	ChemAxon
pKa (Strongest Basic)	-2.7	ChemAxon
Physiological Charge	-1	ChemAxon
Hydrogen Acceptor Count	14	ChemAxon
Hydrogen Donor Count	7	ChemAxon
Polar Surface Area	217.46 Å²	ChemAxon
Rotatable Bond Count	8	ChemAxon
Refractivity	123.04 m³·mol⁻¹	ChemAxon
Polarizability	50.29 Å³	ChemAxon
Number of Rings	4	ChemAxon
Bioavailability	No	ChemAxon
Rule of Five	No	ChemAxon
Ghose Filter	No	ChemAxon
Veber's Rule	No	ChemAxon
MDDR-like Rule	Yes	ChemAxon

External Links

HMDB ID

Not Available

DrugBank ID

Not Available

Phenol Explorer Compound ID

Not Available

FoodDB ID

Not Available

KNApSAcK ID

Not Available

Chemspider ID

78445101

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

139584617

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

LOTUS database [Link]

Showing NP-Card for 10-[(2s,3s,4r)-5-{[3,4-dihydroxy-5-(hydroxymethyl)oxolan-2-yl]oxy}-2,3,4-trihydroxypentyl]-4-hydroxy-7,8-dimethylbenzo[g]pteridin-2-one (NP0197824)

MOL for NP0197824 (10-[(2s,3s,4r)-5-{[3,4-dihydroxy-5-(hydroxymethyl)oxolan-2-yl]oxy}-2,3,4-trihydroxypentyl]-4-hydroxy-7,8-dimethylbenzo[g]pteridin-2-one)

3D MOL for NP0197824 (10-[(2s,3s,4r)-5-{[3,4-dihydroxy-5-(hydroxymethyl)oxolan-2-yl]oxy}-2,3,4-trihydroxypentyl]-4-hydroxy-7,8-dimethylbenzo[g]pteridin-2-one)

3D SDF for NP0197824 (10-[(2s,3s,4r)-5-{[3,4-dihydroxy-5-(hydroxymethyl)oxolan-2-yl]oxy}-2,3,4-trihydroxypentyl]-4-hydroxy-7,8-dimethylbenzo[g]pteridin-2-one)

3D-SDF for NP0197824 (10-[(2s,3s,4r)-5-{[3,4-dihydroxy-5-(hydroxymethyl)oxolan-2-yl]oxy}-2,3,4-trihydroxypentyl]-4-hydroxy-7,8-dimethylbenzo[g]pteridin-2-one)

PDB for NP0197824 (10-[(2s,3s,4r)-5-{[3,4-dihydroxy-5-(hydroxymethyl)oxolan-2-yl]oxy}-2,3,4-trihydroxypentyl]-4-hydroxy-7,8-dimethylbenzo[g]pteridin-2-one)

3D PDB for NP0197824 (10-[(2s,3s,4r)-5-{[3,4-dihydroxy-5-(hydroxymethyl)oxolan-2-yl]oxy}-2,3,4-trihydroxypentyl]-4-hydroxy-7,8-dimethylbenzo[g]pteridin-2-one)

SMILES for NP0197824 (10-[(2s,3s,4r)-5-{[3,4-dihydroxy-5-(hydroxymethyl)oxolan-2-yl]oxy}-2,3,4-trihydroxypentyl]-4-hydroxy-7,8-dimethylbenzo[g]pteridin-2-one)

INCHI for NP0197824 (10-[(2s,3s,4r)-5-{[3,4-dihydroxy-5-(hydroxymethyl)oxolan-2-yl]oxy}-2,3,4-trihydroxypentyl]-4-hydroxy-7,8-dimethylbenzo[g]pteridin-2-one)

Structure for NP0197824 (10-[(2s,3s,4r)-5-{[3,4-dihydroxy-5-(hydroxymethyl)oxolan-2-yl]oxy}-2,3,4-trihydroxypentyl]-4-hydroxy-7,8-dimethylbenzo[g]pteridin-2-one)

3D Structure for NP0197824 (10-[(2s,3s,4r)-5-{[3,4-dihydroxy-5-(hydroxymethyl)oxolan-2-yl]oxy}-2,3,4-trihydroxypentyl]-4-hydroxy-7,8-dimethylbenzo[g]pteridin-2-one)