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Record Information
Version1.0
Created at2022-09-03 17:59:16 UTC
Updated at2022-09-03 17:59:16 UTC
NP-MRD IDNP0179753
Secondary Accession NumbersNone
Natural Product Identification
Common Name{[(4e,6z,8s,9s,10e,12s,13r,14s,16s,17r)-3,22-dihydroxy-8,13,14,17-tetramethoxy-4,10,12,16-tetramethyl-20,21-dioxo-2-azabicyclo[16.3.1]docosa-1(22),2,4,6,10,18-hexaen-9-yl]oxy}methanimidic acid
DescriptionHerbimycin E belongs to the class of organic compounds known as macrolactams. These are cyclic amides of amino carboxylic acids, having a 1-azacycloalkan-2-one structure, or analogues having unsaturation or heteroatoms replacing one or more carbon atoms of the ring. They are nitrogen analogues (the a nitrogen atom replacing the o atom of the cyclic carboxylic acid group ) of the naturally occurring macrolides. It was first documented in 2010 (PMID: 20564183). Based on a literature review a significant number of articles have been published on Herbimycin E (PMID: 32273216) (PMID: 25446094) (PMID: 22890360) (PMID: 20384943).
Structure
Thumb
SynonymsNot Available
Chemical FormulaC30H42N2O10
Average Mass590.6700 Da
Monoisotopic Mass590.28395 Da
IUPAC Name{[(4E,6Z,8S,9S,10E,12S,13R,14S,16S,17R)-3,22-dihydroxy-8,13,14,17-tetramethoxy-4,10,12,16-tetramethyl-20,21-dioxo-2-azabicyclo[16.3.1]docosa-1(22),2,4,6,10,18-hexaen-9-yl]oxy}methanimidic acid
Traditional Name{[(4E,6Z,8S,9S,10E,12S,13R,14S,16S,17R)-3,22-dihydroxy-8,13,14,17-tetramethoxy-4,10,12,16-tetramethyl-20,21-dioxo-2-azabicyclo[16.3.1]docosa-1(22),2,4,6,10,18-hexaen-9-yl]oxy}methanimidic acid
CAS Registry NumberNot Available
SMILES
CO[C@H]1C[C@H](C)[C@@H](OC)C2=CC(=O)C(=O)C(N=C(O)\C(C)=C\C=C/[C@H](OC)[C@@H](OC(O)=N)\C(C)=C\[C@H](C)[C@H]1OC)=C2O
InChI Identifier
InChI=1S/C30H42N2O10/c1-15-10-9-11-21(38-5)28(42-30(31)37)17(3)12-16(2)27(41-8)22(39-6)13-18(4)26(40-7)19-14-20(33)25(35)23(24(19)34)32-29(15)36/h9-12,14,16,18,21-22,26-28,34H,13H2,1-8H3,(H2,31,37)(H,32,36)/b11-9-,15-10+,17-12+/t16-,18-,21-,22-,26+,27+,28-/m0/s1
InChI KeyJPFKXBRAIMKSHO-PVMVKREDSA-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 macrolactams. These are cyclic amides of amino carboxylic acids, having a 1-azacycloalkan-2-one structure, or analogues having unsaturation or heteroatoms replacing one or more carbon atoms of the ring. They are nitrogen analogues (the a nitrogen atom replacing the o atom of the cyclic carboxylic acid group ) of the naturally occurring macrolides.
KingdomOrganic compounds
Super ClassPhenylpropanoids and polyketides
ClassMacrolactams
Sub ClassNot Available
Direct ParentMacrolactams
Alternative Parents
Substituents
  • Macrolactam
  • Carbamic acid ester
  • Vinylogous acid
  • Carboxamide group
  • Ketone
  • Lactam
  • Secondary carboxylic acid amide
  • Cyclic ketone
  • Carboxylic acid derivative
  • Dialkyl ether
  • Ether
  • Azacycle
  • Organoheterocyclic compound
  • Organic oxide
  • Organic oxygen compound
  • Organic nitrogen compound
  • Hydrocarbon derivative
  • Organonitrogen compound
  • Organooxygen compound
  • Carbonyl group
  • 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
logP1.12ChemAxon
pKa (Strongest Acidic)-2.9ChemAxon
pKa (Strongest Basic)11.63ChemAxon
Physiological Charge-1ChemAxon
Hydrogen Acceptor Count12ChemAxon
Hydrogen Donor Count4ChemAxon
Polar Surface Area177.19 ŲChemAxon
Rotatable Bond Count6ChemAxon
Refractivity170.6 m³·mol⁻¹ChemAxon
Polarizability60.89 ųChemAxon
Number of Rings2ChemAxon
BioavailabilityNoChemAxon
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 IDNot Available
Chemspider ID30819397
KEGG Compound IDNot Available
BioCyc IDNot Available
BiGG IDNot Available
Wikipedia LinkNot Available
METLIN IDNot Available
PubChem Compound73355229
PDB IDNot Available
ChEBI IDNot Available
Good Scents IDNot Available
References
General References
  1. Nong XH, Tu ZC, Qi SH: Ansamycin derivatives from the marine-derived Streptomyces sp. SCSGAA 0027 and their cytotoxic and antiviral activities. Bioorg Med Chem Lett. 2020 Jun 1;30(11):127168. doi: 10.1016/j.bmcl.2020.127168. Epub 2020 Apr 3. [PubMed:32273216 ]
  2. Kim SH, Kang JG, Kim CS, Ihm SH, Choi MG, Yoo HJ, Lee SJ: Herbimycin A inhibits cell growth with reversal of epithelial-mesenchymal transition in anaplastic thyroid carcinoma cells. Biochem Biophys Res Commun. 2014 Dec 12;455(3-4):363-70. doi: 10.1016/j.bbrc.2014.11.018. Epub 2014 Nov 15. [PubMed:25446094 ]
  3. Zuo DC, Choi S, Shahi PK, Kim MY, Park CG, Kim YD, Lee J, Chang IY, Lee HS, Yeom SC, Moon HJ, Seong SY, So I, Jun JY: Action of lipopolysaccharide on interstitial cells of cajal from mouse small intestine. Pharmacology. 2012;90(3-4):151-9. doi: 10.1159/000340018. Epub 2012 Aug 7. [PubMed:22890360 ]
  4. Li X, Kato N, Mezawa M, Li Z, Wang Z, Yang L, Sasaki Y, Kaneko T, Takai H, Yoshimura A, Ogata Y: Transcriptional regulation of bone sialoprotein gene by Porphyromonas gingivalis lipopolysaccharide. J Cell Biochem. 2010 Jul 1;110(4):823-33. doi: 10.1002/jcb.22594. [PubMed:20564183 ]
  5. Villalba N, Kun A, Stankevicius E, Simonsen U: Role for tyrosine kinases in contraction of rat penile small arteries. J Sex Med. 2010 Jun;7(6):2086-2095. doi: 10.1111/j.1743-6109.2010.01788.x. Epub 2010 Apr 1. [PubMed:20384943 ]
  6. LOTUS database [Link]