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Record Information
Version2.0
Created at2022-09-10 21:12:34 UTC
Updated at2022-09-10 21:12:34 UTC
NP-MRD IDNP0305396
Secondary Accession NumbersNone
Natural Product Identification
Common Name(2s,3s,6r)-4-methoxy-16,18-dioxa-10-azapentacyclo[11.7.0.0²,⁶.0⁶,¹⁰.0¹⁵,¹⁹]icosa-1(20),4,13,15(19)-tetraen-3-yl 1-methyl (3s)-3-hydroxy-3-(3-hydroxy-3-methylbutyl)butanedioate
DescriptionHarringtonine belongs to the class of organic compounds known as cephalotaxus alkaloids. These are alkaloids with a structure based on the cephalotaxine skeleton, a tetracyclic 1,3-benzodioxole-containing compound which arises from the skeletal rearrangement of the hydroaromatic component of the Erythrina group. (2s,3s,6r)-4-methoxy-16,18-dioxa-10-azapentacyclo[11.7.0.0²,⁶.0⁶,¹⁰.0¹⁵,¹⁹]icosa-1(20),4,13,15(19)-tetraen-3-yl 1-methyl (3s)-3-hydroxy-3-(3-hydroxy-3-methylbutyl)butanedioate was first documented in 2020 (PMID: 32906689). Based on a literature review a significant number of articles have been published on harringtonine (PMID: 33458709) (PMID: 35362917) (PMID: 35148094) (PMID: 34676091) (PMID: 34531841) (PMID: 34389492).
Structure
Thumb
Synonyms
ValueSource
Harringtonine, (S)-isomerMeSH
2'r-HarringtonineMeSH
Harringtonine hydrochlorideMeSH
HarringtoninMeSH
Cephalotaxine, 4-methyl (2R)-2-hydroxy-2-(3-hydroxy-3-methylbutyl)butanedioate (ester)MeSH
Harringtonine, (R)-isomerMeSH
Harringtonine, racemic mixtureMeSH
Chemical FormulaC28H37NO9
Average Mass531.6020 Da
Monoisotopic Mass531.24683 Da
IUPAC Name(2S,3S,6R)-4-methoxy-16,18-dioxa-10-azapentacyclo[11.7.0.0^{2,6}.0^{6,10}.0^{15,19}]icosa-1(20),4,13,15(19)-tetraen-3-yl 1-methyl (3S)-3-hydroxy-3-(3-hydroxy-3-methylbutyl)butanedioate
Traditional Name(2S,3S,6R)-4-methoxy-16,18-dioxa-10-azapentacyclo[11.7.0.0^{2,6}.0^{6,10}.0^{15,19}]icosa-1(20),4,13,15(19)-tetraen-3-yl 1-methyl (3S)-3-hydroxy-3-(3-hydroxy-3-methylbutyl)butanedioate
CAS Registry NumberNot Available
SMILES
COC(=O)C[C@@](O)(CCC(C)(C)O)C(=O)O[C@H]1[C@H]2C3=CC4=C(OCO4)C=C3CCN3CCC[C@]23C=C1OC
InChI Identifier
InChI=1S/C28H37NO9/c1-26(2,32)8-9-28(33,15-22(30)35-4)25(31)38-24-21(34-3)14-27-7-5-10-29(27)11-6-17-12-19-20(37-16-36-19)13-18(17)23(24)27/h12-14,23-24,32-33H,5-11,15-16H2,1-4H3/t23-,24-,27+,28+/m1/s1
InChI KeyHAVJATCHLFRDHY-ZBVBGGFBSA-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 OriginNot Available
Chemical Taxonomy
Description Belongs to the class of organic compounds known as cephalotaxus alkaloids. These are alkaloids with a structure based on the cephalotaxine skeleton, a tetracyclic 1,3-benzodioxole-containing compound which arises from the skeletal rearrangement of the hydroaromatic component of the Erythrina group.
KingdomOrganic compounds
Super ClassAlkaloids and derivatives
ClassCephalotaxus alkaloids
Sub ClassNot Available
Direct ParentCephalotaxus alkaloids
Alternative Parents
Substituents
  • Cephalotaxine
  • Cephalotaxus alkaloid skeleton
  • Benzazepine
  • Benzodioxole
  • Fatty acid methyl ester
  • Azepine
  • Fatty acid ester
  • Aralkylamine
  • N-alkylpyrrolidine
  • Benzenoid
  • Dicarboxylic acid or derivatives
  • Fatty acyl
  • Pyrrolidine
  • Methyl ester
  • Tertiary alcohol
  • Amino acid or derivatives
  • Carboxylic acid ester
  • Tertiary amine
  • Tertiary aliphatic amine
  • Acetal
  • Carboxylic acid derivative
  • Oxacycle
  • Azacycle
  • Organoheterocyclic compound
  • Hydrocarbon derivative
  • Alcohol
  • Carbonyl group
  • Organic oxide
  • Organopnictogen compound
  • Organic oxygen compound
  • Amine
  • Organic nitrogen compound
  • Organonitrogen compound
  • Organooxygen compound
  • 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
logP1.44ChemAxon
pKa (Strongest Acidic)12.09ChemAxon
pKa (Strongest Basic)9.42ChemAxon
Physiological Charge1ChemAxon
Hydrogen Acceptor Count8ChemAxon
Hydrogen Donor Count2ChemAxon
Polar Surface Area123.99 ŲChemAxon
Rotatable Bond Count10ChemAxon
Refractivity137.47 m³·mol⁻¹ChemAxon
Polarizability55.53 ųChemAxon
Number of Rings5ChemAxon
BioavailabilityYesChemAxon
Rule of FiveNoChemAxon
Ghose FilterNoChemAxon
Veber's RuleNoChemAxon
MDDR-like RuleYesChemAxon
HMDB IDNot Available
DrugBank IDNot Available
Phenol Explorer Compound IDNot Available
FoodDB IDNot Available
KNApSAcK IDC00002342
Chemspider ID23089589
KEGG Compound IDNot Available
BioCyc IDNot Available
BiGG IDNot Available
Wikipedia LinkNot Available
METLIN IDNot Available
PubChem Compound29927670
PDB IDNot Available
ChEBI IDNot Available
Good Scents IDNot Available
References
General References
  1. Hollerer I, Powers EN, Brar GA: Global mapping of translation initiation sites by TIS profiling in budding yeast. STAR Protoc. 2020 Dec 30;2(1):100250. doi: 10.1016/j.xpro.2020.100250. eCollection 2021 Mar 19. [PubMed:33458709 ]
  2. Ma H, Wen H, Qin Y, Wu S, Zhang G, Wu CI, Cai Q: Homo-harringtonine, highly effective against coronaviruses, is safe in treating COVID-19 by nebulization. Sci China Life Sci. 2022 Jun;65(6):1263-1266. doi: 10.1007/s11427-021-2093-2. Epub 2022 Mar 22. [PubMed:35362917 ]
  3. Ochi A, Yoritate M, Miyamoto T, Usui K, Yusakul G, Putalun W, Tanaka H, Hirai G, Morimoto S, Sakamoto S: Harringtonine Ester Derivatives with Enhanced Antiproliferative Activities against HL-60 and HeLa Cells. J Nat Prod. 2022 Feb 25;85(2):345-351. doi: 10.1021/acs.jnatprod.1c00888. Epub 2022 Feb 11. [PubMed:35148094 ]
  4. Wen HJ, Liu FL, Huang MX, Luo RH, He WB, Feng J, Chen FL, Cai QC, Ma HJ, Yang ZF, Zhou X, Shang Y, Lyu XM, Zhang DY, Xiao F, Shan H, He JX, Zheng YT, Wu CI: A proposal for clinical trials of COVID-19 treatment using homo-harringtonine. Natl Sci Rev. 2020 Oct 12;8(1):nwaa257. doi: 10.1093/nsr/nwaa257. eCollection 2021 Jan. [PubMed:34676091 ]
  5. Liu Y, You Q, Zhang F, Chen D, Huang Z, Wu Z: Harringtonine Inhibits Herpes Simplex Virus Type 1 Infection by Reducing Herpes Virus Entry Mediator Expression. Front Microbiol. 2021 Aug 31;12:722748. doi: 10.3389/fmicb.2021.722748. eCollection 2021. [PubMed:34531841 ]
  6. Ji S, Liu M, Galon EM, Rizk MA, Li J, Li Y, Zafar I, Igarashi I, Xuan X: In vitro screening of novel anti-Babesia gibsoni drugs from natural products. Parasitol Int. 2021 Dec;85:102437. doi: 10.1016/j.parint.2021.102437. Epub 2021 Aug 11. [PubMed:34389492 ]
  7. Wang D, Wang J, Zhang J, Yi X, Piao J, Li L, Wang J, Zhang P, He Q: Decrease of ABCB1 protein expression and increase of G(1) phase arrest induced by oleanolic acid in human multidrug-resistant cancer cells. Exp Ther Med. 2021 Jul;22(1):735. doi: 10.3892/etm.2021.10167. Epub 2021 May 9. [PubMed:34055052 ]
  8. Lai ZZ, Ho YJ, Lu JW: Harringtonine Inhibits Zika Virus Infection through Multiple Mechanisms. Molecules. 2020 Sep 7;25(18):4082. doi: 10.3390/molecules25184082. [PubMed:32906689 ]
  9. LOTUS database [Link]