Np mrd loader

Record Information
Version2.0
Created at2022-09-06 18:42:46 UTC
Updated at2022-09-06 18:42:46 UTC
NP-MRD IDNP0235939
Secondary Accession NumbersNone
Natural Product Identification
Common Name(3r,4ar,10as)-3,4a-dichloro-10a-[(2e)-3,7-dimethylocta-2,6-dien-1-yl]-6,8-dihydroxy-2,2-dimethyl-3h,4h-naphtho[2,3-b]pyran-5,10-dione
DescriptionNapyradiomycin A1, also known as NPD-a1 or WS 9558 a, belongs to the class of organic compounds known as menaquinones. These are vitamin K2 compounds consisting of a naphtho-1,4-quinone ring system, which is substituted at the 2-position by an isoprenyl side-chain, and usually, at the 3-position by a methyl group. (3r,4ar,10as)-3,4a-dichloro-10a-[(2e)-3,7-dimethylocta-2,6-dien-1-yl]-6,8-dihydroxy-2,2-dimethyl-3h,4h-naphtho[2,3-b]pyran-5,10-dione is found in Streptomyces aculeolatus, Streptomyces antimycoticus and Streptomyces ruber. (3r,4ar,10as)-3,4a-dichloro-10a-[(2e)-3,7-dimethylocta-2,6-dien-1-yl]-6,8-dihydroxy-2,2-dimethyl-3h,4h-naphtho[2,3-b]pyran-5,10-dione was first documented in 2009 (PMID: 19338329). Based on a literature review a small amount of articles have been published on Napyradiomycin A1 (PMID: 23771045) (PMID: 27763545) (PMID: 28749137) (PMID: 22252199).
Structure
Thumb
Synonyms
ValueSource
NPD-a1MeSH
WS 9558 aMeSH
Napyrodiomycin aMeSH
Chemical FormulaC25H30Cl2O5
Average Mass481.4100 Da
Monoisotopic Mass480.14703 Da
IUPAC Name(3R,4aR,10aS)-3,4a-dichloro-10a-[(2E)-3,7-dimethylocta-2,6-dien-1-yl]-6,8-dihydroxy-2,2-dimethyl-2H,3H,4H,4aH,5H,10H,10aH-naphtho[2,3-b]pyran-5,10-dione
Traditional Name(3R,4aR,10aS)-3,4a-dichloro-10a-[(2E)-3,7-dimethylocta-2,6-dien-1-yl]-6,8-dihydroxy-2,2-dimethyl-3H,4H-naphtho[2,3-b]pyran-5,10-dione
CAS Registry NumberNot Available
SMILES
CC(C)=CCC\C(C)=C\C[C@@]12OC(C)(C)[C@H](Cl)C[C@]1(Cl)C(=O)C1=C(O)C=C(O)C=C1C2=O
InChI Identifier
InChI=1S/C25H30Cl2O5/c1-14(2)7-6-8-15(3)9-10-25-21(30)17-11-16(28)12-18(29)20(17)22(31)24(25,27)13-19(26)23(4,5)32-25/h7,9,11-12,19,28-29H,6,8,10,13H2,1-5H3/b15-9+/t19-,24+,25+/m1/s1
InChI KeyBCPWMPCOEAOEDD-NQSCOFRMSA-N
Experimental Spectra
Not Available
Predicted Spectra
Spectrum TypeDescriptionDepositor IDDepositor OrganizationDepositorDeposition DateView
1D NMR13C NMR Spectrum (1D, 25 MHz, H2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR1H NMR Spectrum (1D, 100 MHz, H2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR13C NMR Spectrum (1D, 252 MHz, H2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR1H NMR Spectrum (1D, 1000 MHz, H2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR13C NMR Spectrum (1D, 50 MHz, H2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR1H NMR Spectrum (1D, 200 MHz, H2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR13C NMR Spectrum (1D, 75 MHz, H2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR1H NMR Spectrum (1D, 300 MHz, H2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR13C NMR Spectrum (1D, 101 MHz, H2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR1H NMR Spectrum (1D, 400 MHz, H2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR13C NMR Spectrum (1D, 126 MHz, H2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR1H NMR Spectrum (1D, 500 MHz, H2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR13C NMR Spectrum (1D, 151 MHz, H2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR1H NMR Spectrum (1D, 600 MHz, H2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR13C NMR Spectrum (1D, 176 MHz, H2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR1H NMR Spectrum (1D, 700 MHz, H2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR13C NMR Spectrum (1D, 201 MHz, H2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR1H NMR Spectrum (1D, 800 MHz, H2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR13C NMR Spectrum (1D, 226 MHz, H2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR1H NMR Spectrum (1D, 900 MHz, H2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
Chemical Shift Submissions
Not Available
Species
Species of Origin
Species NameSourceReference
Streptomyces aculeolatusLOTUS Database
Streptomyces antimycoticusLOTUS Database
Streptomyces ruberLOTUS Database
Chemical Taxonomy
Description Belongs to the class of organic compounds known as menaquinones. These are vitamin K2 compounds consisting of a naphtho-1,4-quinone ring system, which is substituted at the 2-position by an isoprenyl side-chain, and usually, at the 3-position by a methyl group.
KingdomOrganic compounds
Super ClassLipids and lipid-like molecules
ClassPrenol lipids
Sub ClassQuinone and hydroquinone lipids
Direct ParentMenaquinones
Alternative Parents
Substituents
  • Menaquinone
  • Naphthopyranone
  • Naphthopyran
  • Naphthoquinone
  • Aromatic monoterpenoid
  • Monoterpenoid
  • Naphthalene
  • Tetralin
  • Aryl alkyl ketone
  • Aryl ketone
  • Quinone
  • 1-hydroxy-2-unsubstituted benzenoid
  • 1-hydroxy-4-unsubstituted benzenoid
  • Pyranone
  • Oxane
  • Pyran
  • Benzenoid
  • Vinylogous acid
  • Alpha-haloketone
  • Alpha-chloroketone
  • Ketone
  • Dialkyl ether
  • Ether
  • Organoheterocyclic compound
  • Oxacycle
  • Organic oxygen compound
  • Alkyl halide
  • Organohalogen compound
  • Organochloride
  • Organooxygen compound
  • Alkyl chloride
  • Hydrocarbon derivative
  • Organic oxide
  • 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
logP6.52ChemAxon
pKa (Strongest Acidic)7.2ChemAxon
pKa (Strongest Basic)-4.3ChemAxon
Physiological Charge0ChemAxon
Hydrogen Acceptor Count5ChemAxon
Hydrogen Donor Count2ChemAxon
Polar Surface Area83.83 ŲChemAxon
Rotatable Bond Count5ChemAxon
Refractivity128.13 m³·mol⁻¹ChemAxon
Polarizability49.7 ųChemAxon
Number of Rings3ChemAxon
BioavailabilityYesChemAxon
Rule of FiveNoChemAxon
Ghose FilterNoChemAxon
Veber's RuleNoChemAxon
MDDR-like RuleNoChemAxon
HMDB IDNot Available
DrugBank IDNot Available
Phenol Explorer Compound IDNot Available
FoodDB IDNot Available
KNApSAcK IDC00038179
Chemspider ID4943391
KEGG Compound IDNot Available
BioCyc IDNot Available
BiGG IDNot Available
Wikipedia LinkNot Available
METLIN IDNot Available
PubChem Compound6438953
PDB IDNot Available
ChEBI IDNot Available
Good Scents IDNot Available
References
General References
  1. Wu Z, Li S, Li J, Chen Y, Saurav K, Zhang Q, Zhang H, Zhang W, Zhang W, Zhang S, Zhang C: Antibacterial and cytotoxic new napyradiomycins from the marine-derived Streptomyces sp. SCSIO 10428. Mar Drugs. 2013 Jun 14;11(6):2113-25. doi: 10.3390/md11062113. [PubMed:23771045 ]
  2. Lacret R, Perez-Victoria I, Oves-Costales D, de la Cruz M, Domingo E, Martin J, Diaz C, Vicente F, Genilloud O, Reyes F: MDN-0170, a New Napyradiomycin from Streptomyces sp. Strain CA-271078. Mar Drugs. 2016 Oct 18;14(10). pii: md14100188. doi: 10.3390/md14100188. [PubMed:27763545 ]
  3. Hwang JS, Kim GJ, Choi HG, Kim MC, Hahn D, Nam JW, Nam SJ, Kwon HC, Chin J, Cho SJ, Hwang H, Choi H: Identification of Antiangiogenic Potential and Cellular Mechanisms of Napyradiomycin A1 Isolated from the Marine-Derived Streptomyces sp. YP127. J Nat Prod. 2017 Aug 25;80(8):2269-2275. doi: 10.1021/acs.jnatprod.7b00211. Epub 2017 Jul 27. [PubMed:28749137 ]
  4. Yamamoto K, Tashiro E, Motohashi K, Seto H, Imoto M: Napyradiomycin A1, an inhibitor of mitochondrial complexes I and II. J Antibiot (Tokyo). 2012 Apr;65(4):211-4. doi: 10.1038/ja.2011.138. Epub 2012 Jan 18. [PubMed:22252199 ]
  5. Snyder SA, Tang ZY, Gupta R: Enantioselective total synthesis of (-)-napyradiomycin A1 via asymmetric chlorination of an isolated olefin. J Am Chem Soc. 2009 Apr 29;131(16):5744-5. doi: 10.1021/ja9014716. [PubMed:19338329 ]
  6. LOTUS database [Link]