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Record Information
Version1.0
Created at2020-12-09 00:52:38 UTC
Updated at2021-07-15 16:47:08 UTC
NP-MRD IDNP0003696
Secondary Accession NumbersNone
Natural Product Identification
Common NameGavibamycin B3
Provided ByNPAtlasNPAtlas Logo
Description Gavibamycin B3 is found in Streptomyces. It was first documented in 2001 (PMID: 11410376). Based on a literature review very few articles have been published on 4-hydroxy-6-(6-{[3-hydroxy-2-({4-hydroxy-6-[7'-(1-hydroxyethyl)-6'-methyl-7-[(2-methylpropanoyl)oxy]-octahydro-2'H,3aH-2,4'-spirobi[[1,3]dioxolo[4,5-c]pyran]-7'-oloxy]-5-methoxy-2-(methoxymethyl)oxan-3-yl}oxy)-5-methoxy-6-methyloxan-4-yl]oxy}-4,6',7a-trimethyl-tetrahydro-3aH-spiro[[1,3]dioxolo[4,5-c]pyran-2,2'-oxane]-4'-oloxy)-2-methyloxan-3-yl 2,4-dihydroxy-6-methylbenzoate.
Structure
Thumb
Synonyms
ValueSource
4-Hydroxy-6-(6-{[3-hydroxy-2-({4-hydroxy-6-[7'-(1-hydroxyethyl)-6'-methyl-7-[(2-methylpropanoyl)oxy]-octahydro-2'H,3ah-2,4'-spirobi[[1,3]dioxolo[4,5-c]pyran]-7'-oloxy]-5-methoxy-2-(methoxymethyl)oxan-3-yl}oxy)-5-methoxy-6-methyloxan-4-yl]oxy}-4,6',7a-trimethyl-tetrahydro-3ah-spiro[[1,3]dioxolo[4,5-c]pyran-2,2'-oxane]-4'-oloxy)-2-methyloxan-3-yl 2,4-dihydroxy-6-methylbenzoic acidGenerator
Chemical FormulaC60H90O32
Average Mass1323.3480 Da
Monoisotopic Mass1322.54152 Da
IUPAC Name(2S,3R,4R,6S)-6-[(2S,3aS,4S,4'S,5'S,6R,6'R,7aR)-6-{[(2R,3R,4S,5S,6R)-2-{[(2R,3S,4S,5S,6S)-6-[(2R,3aS,3'aS,6R,6'S,7S,7'S,7aS,7'aS)-7'-[(1R)-1-hydroxyethyl]-6'-methyl-7-[(2-methylpropanoyl)oxy]-octahydro-2'H,3aH-2,4'-spirobi[[1,3]dioxolo[4,5-c]pyran]-7'-oloxy]-4-hydroxy-5-methoxy-2-(methoxymethyl)oxan-3-yl]oxy}-3-hydroxy-5-methoxy-6-methyloxan-4-yl]oxy}-4,6',7a-trimethyl-tetrahydro-3aH-spiro[[1,3]dioxolo[4,5-c]pyran-2,2'-oxane]-4'-oloxy]-4-hydroxy-2-methyloxan-3-yl 2,4-dihydroxy-6-methylbenzoate
Traditional Name(2S,3R,4R,6S)-6-[(2S,3aS,4S,4'S,5'S,6R,6'R,7aR)-6-{[(2R,3R,4S,5S,6R)-2-{[(2R,3S,4S,5S,6S)-6-[(2R,3aS,3'aS,6R,6'S,7S,7'S,7aS,7'aS)-7'-[(1R)-1-hydroxyethyl]-6'-methyl-7-[(2-methylpropanoyl)oxy]-octahydro-3aH-2,4'-spirobi[[1,3]dioxolo[4,5-c]pyran]-7'-oloxy]-4-hydroxy-5-methoxy-2-(methoxymethyl)oxan-3-yl]oxy}-3-hydroxy-5-methoxy-6-methyloxan-4-yl]oxy}-4,6',7a-trimethyl-tetrahydrospiro[[1,3]dioxolo[4,5-c]pyran-2,2'-oxane]-4'-oloxy]-4-hydroxy-2-methyloxan-3-yl 2,4-dihydroxy-6-methylbenzoate
CAS Registry NumberNot Available
SMILES
COCC1OC(OC2OCC3OC4(OC3C2OC(=O)C(C)C)OC(C)C(O)(C(C)O)C2OCOC42)C(OC)C(O)C1OC1OC(C)C(OC)C(OC2CC3(C)OC4(CC(O)C(OC5CC(O)C(OC(=O)C6=C(O)C=C(O)C=C6C)C(C)O5)C(C)O4)OC3C(C)O2)C1O
InChI Identifier
InChI=1S/C60H90O32/c1-22(2)52(68)84-48-45-35(89-60(90-45)51-50(75-21-76-51)59(70,28(8)61)29(9)88-60)20-74-55(48)86-56-47(73-13)39(66)44(34(80-56)19-71-11)85-54-40(67)46(43(72-12)25(5)79-54)82-37-18-57(10)49(27(7)78-37)91-58(92-57)17-33(65)42(26(6)87-58)81-36-16-32(64)41(24(4)77-36)83-53(69)38-23(3)14-30(62)15-31(38)63/h14-15,22,24-29,32-37,39-51,54-56,61-67,70H,16-21H2,1-13H3
InChI KeyWHNUDCPAAPIIST-UHFFFAOYSA-N
Experimental Spectra
Not Available
Predicted Spectra
Spectrum TypeDescriptionDepositor IDDepositor OrganizationDepositorDeposition DateView
1D NMR13C NMR Spectrum (1D, 25 MHz, D2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR1H NMR Spectrum (1D, 100 MHz, D2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR13C NMR Spectrum (1D, 252 MHz, D2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR1H NMR Spectrum (1D, 1000 MHz, D2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR13C NMR Spectrum (1D, 50 MHz, D2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR1H NMR Spectrum (1D, 200 MHz, D2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR13C NMR Spectrum (1D, 75 MHz, D2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR1H NMR Spectrum (1D, 300 MHz, D2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR13C NMR Spectrum (1D, 101 MHz, D2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR1H NMR Spectrum (1D, 400 MHz, D2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR13C NMR Spectrum (1D, 126 MHz, D2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR1H NMR Spectrum (1D, 500 MHz, D2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR13C NMR Spectrum (1D, 151 MHz, D2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR1H NMR Spectrum (1D, 600 MHz, D2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR13C NMR Spectrum (1D, 176 MHz, D2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR1H NMR Spectrum (1D, 700 MHz, D2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR13C NMR Spectrum (1D, 201 MHz, D2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR1H NMR Spectrum (1D, 800 MHz, D2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR13C NMR Spectrum (1D, 226 MHz, D2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR1H NMR Spectrum (1D, 900 MHz, D2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
Chemical Shift Submissions
Not Available
Species
Species of Origin
Species NameSourceReference
StreptomycesNPAtlas
Chemical Taxonomy
ClassificationNot classified
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
logP2.31ChemAxon
pKa (Strongest Acidic)8.7ChemAxon
pKa (Strongest Basic)-3.2ChemAxon
Physiological Charge0ChemAxon
Hydrogen Acceptor Count30ChemAxon
Hydrogen Donor Count8ChemAxon
Polar Surface Area399.04 ŲChemAxon
Rotatable Bond Count19ChemAxon
Refractivity298.88 m³·mol⁻¹ChemAxon
Polarizability134.53 ųChemAxon
Number of Rings11ChemAxon
BioavailabilityNoChemAxon
Rule of FiveNoChemAxon
Ghose FilterNoChemAxon
Veber's RuleNoChemAxon
MDDR-like RuleYesChemAxon
NPAtlas IDNPA004647
HMDB IDNot Available
DrugBank IDNot Available
Phenol Explorer Compound IDNot Available
FoodDB IDNot Available
KNApSAcK IDNot Available
Chemspider ID78443635
KEGG Compound IDNot Available
BioCyc IDNot Available
BiGG IDNot Available
Wikipedia LinkNot Available
METLIN IDNot Available
PubChem Compound85339884
PDB IDNot Available
ChEBI IDNot Available
Good Scents IDNot Available
References
General References
  1. Weitnauer G, Muhlenweg A, Trefzer A, Hoffmeister D, Sussmuth RD, Jung G, Welzel K, Vente A, Girreser U, Bechthold A: Biosynthesis of the orthosomycin antibiotic avilamycin A: deductions from the molecular analysis of the avi biosynthetic gene cluster of Streptomyces viridochromogenes Tu57 and production of new antibiotics. Chem Biol. 2001 Jun;8(6):569-81. doi: 10.1016/s1074-5521(01)00040-0. [PubMed:11410376 ]