Np mrd loader

Showing NP-Card for methyl 8-hydroxy-6-(hydroxymethyl)-2-methanesulfinyl-9-oxoxanthene-1-carboxylate (NP0163501)

Jump To Section:
IdentificationSpectraBioTaxonomyChemoTaxonomyPhysical propertiesLinksReferencesXML
Record Information
Version2.0
Created at2022-09-02 22:09:37 UTC
Updated at2022-09-02 22:09:37 UTC
NP-MRD IDNP0163501
Secondary Accession NumbersNone
Natural Product Identification
Common Namemethyl 8-hydroxy-6-(hydroxymethyl)-2-methanesulfinyl-9-oxoxanthene-1-carboxylate
DescriptionSydoxanthone C belongs to the class of organic compounds known as xanthones. These are polycyclic aromatic compounds containing a xanthene moiety conjugated to a ketone group at carbon 9. Xanthene is a tricyclic compound made up of two benzene rings linearly fused to each other through a pyran ring. Sydoxanthone C is a secondary metabolite. Secondary metabolites are metabolically or physiologically non-essential metabolites that may serve a role as defense or signalling molecules. In some cases they are simply molecules that arise from the incomplete metabolism of other secondary metabolites. methyl 8-hydroxy-6-(hydroxymethyl)-2-methanesulfinyl-9-oxoxanthene-1-carboxylate was first documented in 2015 (PMID: 25944530). Based on a literature review very few articles have been published on sydoxanthone C.
Structure
Thumb
MOLSDFPDBSMILESInChI

MOL for NP0163501 (methyl 8-hydroxy-6-(hydroxymethyl)-2-methanesulfinyl-9-oxoxanthene-1-carboxylate)


  Mrv1652309032200092D          

 25 27  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
    0.7145   -2.8875    0.0000 S   0  3  0  0  0  0  0  0  0  0  0  0
    0.0000   -2.4750    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7145   -3.7125    0.0000 O   0  5  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
    2.8579   -1.6500    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.5724   -1.2375    0.0000 O   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
    5.7158   -1.6500    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.4302   -1.2375    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.4302   -0.4125    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 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.5724   -3.7125    0.0000 O   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  1  0  0  0  0
  7  8  1  0  0  0  0
  7  9  1  0  0  0  0
  6 10  2  0  0  0  0
 10 11  1  0  0  0  0
 11 12  2  0  0  0  0
 12 13  1  0  0  0  0
 13 14  1  0  0  0  0
 14 15  2  0  0  0  0
 15 16  1  0  0  0  0
 16 17  1  0  0  0  0
 17 18  1  0  0  0  0
 16 19  2  0  0  0  0
 19 20  1  0  0  0  0
 20 21  1  0  0  0  0
 20 22  2  0  0  0  0
 14 22  1  0  0  0  0
 22 23  1  0  0  0  0
 23 24  2  0  0  0  0
 23 25  1  0  0  0  0
  5 25  2  0  0  0  0
 12 25  1  0  0  0  0
M  CHG  2   7   1   9  -1
M  END
Download

3D MOL for NP0163501 (methyl 8-hydroxy-6-(hydroxymethyl)-2-methanesulfinyl-9-oxoxanthene-1-carboxylate)

Download
3D SDF for NP0163501 (methyl 8-hydroxy-6-(hydroxymethyl)-2-methanesulfinyl-9-oxoxanthene-1-carboxylate)

  Mrv1652309032200092D          

 25 27  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
    0.7145   -2.8875    0.0000 S   0  3  0  0  0  0  0  0  0  0  0  0
    0.0000   -2.4750    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7145   -3.7125    0.0000 O   0  5  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
    2.8579   -1.6500    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.5724   -1.2375    0.0000 O   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
    5.7158   -1.6500    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.4302   -1.2375    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.4302   -0.4125    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 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.5724   -3.7125    0.0000 O   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  1  0  0  0  0
  7  8  1  0  0  0  0
  7  9  1  0  0  0  0
  6 10  2  0  0  0  0
 10 11  1  0  0  0  0
 11 12  2  0  0  0  0
 12 13  1  0  0  0  0
 13 14  1  0  0  0  0
 14 15  2  0  0  0  0
 15 16  1  0  0  0  0
 16 17  1  0  0  0  0
 17 18  1  0  0  0  0
 16 19  2  0  0  0  0
 19 20  1  0  0  0  0
 20 21  1  0  0  0  0
 20 22  2  0  0  0  0
 14 22  1  0  0  0  0
 22 23  1  0  0  0  0
 23 24  2  0  0  0  0
 23 25  1  0  0  0  0
  5 25  2  0  0  0  0
 12 25  1  0  0  0  0
M  CHG  2   7   1   9  -1
M  END
> <DATABASE_ID>
NP0163501

> <DATABASE_NAME>
NP-MRD

> <SMILES>
COC(=O)C1=C2C(OC3=CC(CO)=CC(O)=C3C2=O)=CC=C1[S+](C)[O-]

> <INCHI_IDENTIFIER>
InChI=1S/C17H14O7S/c1-23-17(21)15-12(25(2)22)4-3-10-14(15)16(20)13-9(19)5-8(7-18)6-11(13)24-10/h3-6,18-19H,7H2,1-2H3

> <INCHI_KEY>
AYCYZLASDOHFHP-UHFFFAOYSA-N

> <FORMULA>
C17H14O7S

> <MOLECULAR_WEIGHT>
362.35

> <EXACT_MASS>
362.046023965

> <JCHEM_ACCEPTOR_COUNT>
5

> <JCHEM_ATOM_COUNT>
39

> <JCHEM_AVERAGE_POLARIZABILITY>
35.685516585429255

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
2

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
methyl 8-hydroxy-6-(hydroxymethyl)-2-methanesulfinyl-9-oxo-9H-xanthene-1-carboxylate

> <ALOGPS_LOGP>
1.52

> <JCHEM_LOGP>
1.2756167336666664

> <ALOGPS_LOGS>
-2.45

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
3

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
14.951622861334116

> <JCHEM_PKA_STRONGEST_ACIDIC>
8.226013796036279

> <JCHEM_PKA_STRONGEST_BASIC>
-2.915172770811017

> <JCHEM_POLAR_SURFACE_AREA>
110.13000000000002

> <JCHEM_REFRACTIVITY>
92.0

> <JCHEM_ROTATABLE_BOND_COUNT>
4

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
1.29e+00 g/l

> <JCHEM_TRADITIONAL_IUPAC>
methyl 8-hydroxy-6-(hydroxymethyl)-2-methanesulfinyl-9-oxoxanthene-1-carboxylate

> <JCHEM_VEBER_RULE>
0

$$$$

Download
3D-SDF for NP0163501 (methyl 8-hydroxy-6-(hydroxymethyl)-2-methanesulfinyl-9-oxoxanthene-1-carboxylate)
Download
PDB for NP0163501 (methyl 8-hydroxy-6-(hydroxymethyl)-2-methanesulfinyl-9-oxoxanthene-1-carboxylate)
HEADER    PROTEIN                                 03-SEP-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   03-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  S   UNK     0       1.334  -5.390   0.000  0.00  0.00           S+1
HETATM    8  C   UNK     0       0.000  -4.620   0.000  0.00  0.00           C+0
HETATM    9  O   UNK     0       1.334  -6.930   0.000  0.00  0.00           O-1
HETATM   10  C   UNK     0       2.667  -3.080   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0       4.001  -2.310   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0       5.335  -3.080   0.000  0.00  0.00           C+0
HETATM   13  O   UNK     0       6.668  -2.310   0.000  0.00  0.00           O+0
HETATM   14  C   UNK     0       8.002  -3.080   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0       9.336  -2.310   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0      10.669  -3.080   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0      12.003  -2.310   0.000  0.00  0.00           C+0
HETATM   18  O   UNK     0      12.003  -0.770   0.000  0.00  0.00           O+0
HETATM   19  C   UNK     0      10.669  -4.620   0.000  0.00  0.00           C+0
HETATM   20  C   UNK     0       9.336  -5.390   0.000  0.00  0.00           C+0
HETATM   21  O   UNK     0       9.336  -6.930   0.000  0.00  0.00           O+0
HETATM   22  C   UNK     0       8.002  -4.620   0.000  0.00  0.00           C+0
HETATM   23  C   UNK     0       6.668  -5.390   0.000  0.00  0.00           C+0
HETATM   24  O   UNK     0       6.668  -6.930   0.000  0.00  0.00           O+0
HETATM   25  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   25                                                  
CONECT    6    5    7   10                                                  
CONECT    7    6    8    9                                                  
CONECT    8    7                                                            
CONECT    9    7                                                            
CONECT   10    6   11                                                       
CONECT   11   10   12                                                       
CONECT   12   11   13   25                                                  
CONECT   13   12   14                                                       
CONECT   14   13   15   22                                                  
CONECT   15   14   16                                                       
CONECT   16   15   17   19                                                  
CONECT   17   16   18                                                       
CONECT   18   17                                                            
CONECT   19   16   20                                                       
CONECT   20   19   21   22                                                  
CONECT   21   20                                                            
CONECT   22   20   14   23                                                  
CONECT   23   22   24   25                                                  
CONECT   24   23                                                            
CONECT   25   23    5   12                                                  
MASTER        0    0    0    0    0    0    0    0   25    0   54    0
END

Download
3D PDB for NP0163501 (methyl 8-hydroxy-6-(hydroxymethyl)-2-methanesulfinyl-9-oxoxanthene-1-carboxylate)
Download
SMILES for NP0163501 (methyl 8-hydroxy-6-(hydroxymethyl)-2-methanesulfinyl-9-oxoxanthene-1-carboxylate)
COC(=O)C1=C2C(OC3=CC(CO)=CC(O)=C3C2=O)=CC=C1[S+](C)[O-]
Download
INCHI for NP0163501 (methyl 8-hydroxy-6-(hydroxymethyl)-2-methanesulfinyl-9-oxoxanthene-1-carboxylate)
InChI=1S/C17H14O7S/c1-23-17(21)15-12(25(2)22)4-3-10-14(15)16(20)13-9(19)5-8(7-18)6-11(13)24-10/h3-6,18-19H,7H2,1-2H3
Download
View in JSmol
Synonyms
ValueSource
Methyl 8-hydroxy-6-(hydroxymethyl)-2-(methanesulfinyl)-9-oxo-9H-xanthene-1-carboxylateChEBI
Methyl 8-hydroxy-6-(hydroxymethyl)-2-(methanesulfinyl)-9-oxo-9H-xanthene-1-carboxylic acidGenerator
Methyl 8-hydroxy-6-(hydroxymethyl)-2-(methanesulphinyl)-9-oxo-9H-xanthene-1-carboxylateGenerator
Methyl 8-hydroxy-6-(hydroxymethyl)-2-(methanesulphinyl)-9-oxo-9H-xanthene-1-carboxylic acidGenerator
Chemical FormulaC17H14O7S
Average Mass362.3500 Da
Monoisotopic Mass362.04602 Da
IUPAC Namemethyl 8-hydroxy-6-(hydroxymethyl)-2-methanesulfinyl-9-oxo-9H-xanthene-1-carboxylate
Traditional Namemethyl 8-hydroxy-6-(hydroxymethyl)-2-methanesulfinyl-9-oxoxanthene-1-carboxylate
CAS Registry NumberNot Available
SMILES
COC(=O)C1=C2C(OC3=CC(CO)=CC(O)=C3C2=O)=CC=C1[S+](C)[O-]
InChI Identifier
InChI=1S/C17H14O7S/c1-23-17(21)15-12(25(2)22)4-3-10-14(15)16(20)13-9(19)5-8(7-18)6-11(13)24-10/h3-6,18-19H,7H2,1-2H3
InChI KeyAYCYZLASDOHFHP-UHFFFAOYSA-N
Experimental Spectra
Not Available
Predicted Spectra
Not Available
Chemical Shift Submissions
Not Available
Species
Species of OriginNot Available
Chemical Taxonomy
Description Belongs to the class of organic compounds known as xanthones. These are polycyclic aromatic compounds containing a xanthene moiety conjugated to a ketone group at carbon 9. Xanthene is a tricyclic compound made up of two benzene rings linearly fused to each other through a pyran ring.
KingdomOrganic compounds  
Super ClassOrganoheterocyclic compounds  
ClassBenzopyrans  
Sub Class1-benzopyrans  
Direct ParentXanthones  
Alternative Parents
Substituents
  • Xanthone
    • 

  • Chromone
    • 

  • O-sulfanylbenzoic acid or derivatives
    • 

  • 1-hydroxy-4-unsubstituted benzenoid
    • 

  • 1-hydroxy-2-unsubstituted benzenoid
    • 

  • Pyranone
    • 

  • Benzenoid
    • 

  • Pyran
    • 

  • Heteroaromatic compound
    • 

  • Vinylogous acid
    • 

  • Methyl ester
    • 

  • Sulfoxide
    • 

  • Carboxylic acid ester
    • 

  • Oxacycle
    • 

  • Sulfinyl compound
    • 

  • Monocarboxylic acid or derivatives
    • 

  • Carboxylic acid derivative
    • 

  • Organic oxygen compound
    • 

  • Organic oxide
    • 

  • Hydrocarbon derivative
    • 

  • Aromatic alcohol
    • 

  • Primary alcohol
    • 

  • Organosulfur compound
    • 

  • Organooxygen compound
    • 

  • Alcohol
    • 

  • Aromatic heteropolycyclic compound
Molecular FrameworkAromatic heteropolycyclic compounds
External DescriptorsNot Available
Physical Properties
StateNot Available
Experimental Properties
PropertyValueReference
Melting PointNot AvailableNot Available
Boiling PointNot AvailableNot Available
Water SolubilityNot AvailableNot Available
LogPNot AvailableNot Available
Predicted Properties
PropertyValueSource
logP1.52ALOGPS
logP1.28ChemAxon
logS-2.4ALOGPS
pKa (Strongest Acidic)8.23ChemAxon
pKa (Strongest Basic)-2.9ChemAxon
Physiological Charge0ChemAxon
Hydrogen Acceptor Count5ChemAxon
Hydrogen Donor Count2ChemAxon
Polar Surface Area110.13 ŲChemAxon
Rotatable Bond Count4ChemAxon
Refractivity92 m³·mol⁻¹ChemAxon
Polarizability35.69 ųChemAxon
Number of Rings3ChemAxon
BioavailabilityYesChemAxon
Rule of FiveYesChemAxon
Ghose FilterYesChemAxon
Veber's RuleNoChemAxon
MDDR-like RuleNoChemAxon
HMDB IDNot Available
DrugBank IDNot Available
Phenol Explorer Compound IDNot Available
FoodDB IDNot Available
KNApSAcK IDNot Available
Chemspider ID44210840  
KEGG Compound IDNot Available
BioCyc IDNot Available
BiGG IDNot Available
Wikipedia LinkNot Available
METLIN IDNot Available
PubChem Compound139583693  
PDB IDNot Available
ChEBI ID192356  
Good Scents IDNot Available
References
General References
  1. Tian Y, Qin X, Lin X, Kaliyaperumal K, Zhou X, Liu J, Ju Z, Tu Z, Liu Y: Sydoxanthone C and acremolin B produced by deep-sea-derived fungus Aspergillus sp. SCSIO Ind09F01. J Antibiot (Tokyo). 2015 Nov;68(11):703-6. doi: 10.1038/ja.2015.55. Epub 2015 May 6. [PubMed:25944530  ] 
  2. LOTUS database [Link]