Np mrd loader

Record Information
Version2.0
Created at2022-09-04 22:16:08 UTC
Updated at2022-09-04 22:16:08 UTC
NP-MRD IDNP0202939
Secondary Accession NumbersNone
Natural Product Identification
Common Namemethyl 2-{7-[(3e,5e)-7-hydroxy-7-(2-hydroxy-4-oxo-5h-pyrrol-3-ylidene)-4-methylhepta-3,5-dien-2-yl]-1,6-dimethyl-4-oxo-8,9-dioxaspiro[bicyclo[3.3.1]nonane-2,2'-oxiran]-3'-yl}propanoate
DescriptionNocamycin belongs to the class of organic compounds known as ketals. These are acetals derived from ketones by replacement of the oxo group by two hydrocarbyloxy groups R2C(OR)2 ( R not Hydrogen ). This term, once abandoned, has been reinstated as a subclass of acetals. methyl 2-{7-[(3e,5e)-7-hydroxy-7-(2-hydroxy-4-oxo-5h-pyrrol-3-ylidene)-4-methylhepta-3,5-dien-2-yl]-1,6-dimethyl-4-oxo-8,9-dioxaspiro[bicyclo[3.3.1]nonane-2,2'-oxiran]-3'-yl}propanoate is found in Saccharothrix syringae. methyl 2-{7-[(3e,5e)-7-hydroxy-7-(2-hydroxy-4-oxo-5h-pyrrol-3-ylidene)-4-methylhepta-3,5-dien-2-yl]-1,6-dimethyl-4-oxo-8,9-dioxaspiro[bicyclo[3.3.1]nonane-2,2'-oxiran]-3'-yl}propanoate was first documented in 2017 (PMID: 28818448). Based on a literature review a significant number of articles have been published on Nocamycin (PMID: 33391238) (PMID: 33136202) (PMID: 35730734) (PMID: 33017142) (PMID: 28599654).
Structure
Thumb
SynonymsNot Available
Chemical FormulaC26H33NO9
Average Mass503.5480 Da
Monoisotopic Mass503.21553 Da
IUPAC Namemethyl 2-{7-[(3E,5E)-7-hydroxy-7-(5-hydroxy-3-oxo-3,4-dihydro-2H-pyrrol-4-ylidene)-4-methylhepta-3,5-dien-2-yl]-1,6-dimethyl-4-oxo-8,9-dioxaspiro[bicyclo[3.3.1]nonane-2,2'-oxirane]-3'-yl}propanoate
Traditional Namemethyl 2-{7-[(3E,5E)-7-hydroxy-7-(2-hydroxy-4-oxo-5H-pyrrol-3-ylidene)-4-methylhepta-3,5-dien-2-yl]-1,6-dimethyl-4-oxo-8,9-dioxaspiro[bicyclo[3.3.1]nonane-2,2'-oxirane]-3'-yl}propanoate
CAS Registry NumberNot Available
SMILES
COC(=O)C(C)C1OC11CC(=O)C2OC1(C)OC(C(C)\C=C(/C)\C=C\C(O)=C1C(=O)CN=C1O)C2C
InChI Identifier
InChI=1S/C26H33NO9/c1-12(7-8-16(28)19-18(30)11-27-23(19)31)9-13(2)20-14(3)21-17(29)10-26(25(5,34-20)35-21)22(36-26)15(4)24(32)33-6/h7-9,13-15,20-22,28H,10-11H2,1-6H3,(H,27,31)/b8-7+,12-9+,19-16?
InChI KeyHYMKQHFHDVAFGQ-OZAMFLKISA-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
Saccharothrix syringaeLOTUS Database
Chemical Taxonomy
Description Belongs to the class of organic compounds known as ketals. These are acetals derived from ketones by replacement of the oxo group by two hydrocarbyloxy groups R2C(OR)2 ( R not Hydrogen ). This term, once abandoned, has been reinstated as a subclass of acetals.
KingdomOrganic compounds
Super ClassOrganic oxygen compounds
ClassOrganooxygen compounds
Sub ClassEthers
Direct ParentKetals
Alternative Parents
Substituents
  • Ketal
  • Meta-dioxane
  • Oxane
  • Pyrrolidone
  • 2-pyrrolidone
  • 3-pyrrolidone
  • Pyrrolidine
  • Methyl ester
  • Vinylogous acid
  • Cyclic ketone
  • Carboxamide group
  • Secondary carboxylic acid amide
  • Carboxylic acid ester
  • Ketone
  • Lactam
  • Azacycle
  • Organoheterocyclic compound
  • Carboxylic acid derivative
  • Oxacycle
  • Dialkyl ether
  • Enol
  • Oxirane
  • Monocarboxylic acid or derivatives
  • Carbonyl group
  • Hydrocarbon derivative
  • Organic oxide
  • Aldehyde
  • Organonitrogen compound
  • Organopnictogen compound
  • Organic nitrogen compound
  • Aliphatic heteropolycyclic compound
Molecular FrameworkAliphatic 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
logP2.56ChemAxon
pKa (Strongest Acidic)4.06ChemAxon
pKa (Strongest Basic)1.32ChemAxon
Physiological Charge-1ChemAxon
Hydrogen Acceptor Count9ChemAxon
Hydrogen Donor Count2ChemAxon
Polar Surface Area144.25 ŲChemAxon
Rotatable Bond Count7ChemAxon
Refractivity129.58 m³·mol⁻¹ChemAxon
Polarizability51.97 ųChemAxon
Number of Rings4ChemAxon
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 IDNot Available
Chemspider IDNot Available
KEGG Compound IDNot Available
BioCyc IDNot Available
BiGG IDNot Available
Wikipedia LinkNot Available
METLIN IDNot Available
PubChem Compound91995671
PDB IDNot Available
ChEBI IDNot Available
Good Scents IDNot Available
References
General References
  1. Mo X, Zhang H, Du F, Yang S: Short-Chain Dehydrogenase NcmD Is Responsible for the C-10 Oxidation of Nocamycin F in Nocamycin Biosynthesis. Front Microbiol. 2020 Dec 17;11:610827. doi: 10.3389/fmicb.2020.610827. eCollection 2020. [PubMed:33391238 ]
  2. Mo X, Yang S: Complete Genome of Nocamycin-Producing Strain Saccharothrix syringae NRRL B-16468 Reveals the Biosynthetic Potential for Secondary Metabolites. Curr Microbiol. 2021 Jan;78(1):107-113. doi: 10.1007/s00284-020-02272-0. Epub 2020 Nov 2. [PubMed:33136202 ]
  3. Mo X, Gui C, Wang Q: Elucidation of a carboxylate O-methyltransferase NcmP in nocamycin biosynthetic pathway. Bioorg Med Chem Lett. 2017 Sep 15;27(18):4431-4435. doi: 10.1016/j.bmcl.2017.08.010. Epub 2017 Aug 7. [PubMed:28818448 ]
  4. Hansen KA, Kim RR, Lawton ES, Tran J, Lewis SK, Deol AS, Van Arnam EB: Bacterial Associates of a Desert Specialist Fungus-Growing Ant Antagonize Competitors with a Nocamycin Analog. ACS Chem Biol. 2022 Jul 15;17(7):1824-1830. doi: 10.1021/acschembio.2c00187. Epub 2022 Jun 22. [PubMed:35730734 ]
  5. Cogan DP, Ly J, Nair SK: Structural Basis for Enzymatic Off-Loading of Hybrid Polyketides by Dieckmann Condensation. ACS Chem Biol. 2020 Oct 16;15(10):2783-2791. doi: 10.1021/acschembio.0c00579. Epub 2020 Oct 5. [PubMed:33017142 ]
  6. Mo X, Shi C, Gui C, Zhang Y, Ju J, Wang Q: Identification of nocamycin biosynthetic gene cluster from Saccharothrix syringae NRRL B-16468 and generation of new nocamycin derivatives by manipulating gene cluster. Microb Cell Fact. 2017 Jun 9;16(1):100. doi: 10.1186/s12934-017-0718-5. [PubMed:28599654 ]
  7. LOTUS database [Link]