Np mrd loader

Record Information
Version1.0
Created at2021-01-05 19:41:27 UTC
Updated at2021-07-15 17:04:57 UTC
NP-MRD IDNP0010038
Secondary Accession NumbersNone
Natural Product Identification
Common NameA-90289 B
Provided ByNPAtlasNPAtlas Logo
Description2-({[5-(Aminomethyl)-3,4-dihydroxyoxolan-2-yl]oxy}[3-hydroxy-5-(4-hydroxy-2-oxo-1,2-dihydropyrimidin-1-yl)-4-(sulfooxy)oxolan-2-yl]methyl)-1,4-dimethyl-6-{[14-methyl-3-({3-methyl-5-oxo-5-[(3,4,5-trimethoxy-6-methyloxan-2-yl)oxy]pentanoyl}oxy)pentadecanoyl]oxy}-3-oxo-1,4-diazepane-5-carboxylic acid belongs to the class of organic compounds known as dipeptides. These are organic compounds containing a sequence of exactly two alpha-amino acids joined by a peptide bond. A-90289 B is found in Streptomyces sp. SANK 60405. It was first documented in 2011 (PMID: 21587261). Based on a literature review very few articles have been published on 2-({[5-(aminomethyl)-3,4-dihydroxyoxolan-2-yl]oxy}[3-hydroxy-5-(4-hydroxy-2-oxo-1,2-dihydropyrimidin-1-yl)-4-(sulfooxy)oxolan-2-yl]methyl)-1,4-dimethyl-6-{[14-methyl-3-({3-methyl-5-oxo-5-[(3,4,5-trimethoxy-6-methyloxan-2-yl)oxy]pentanoyl}oxy)pentadecanoyl]oxy}-3-oxo-1,4-diazepane-5-carboxylic acid.
Structure
Data?1621576221
Synonyms
ValueSource
2-({[5-(aminomethyl)-3,4-dihydroxyoxolan-2-yl]oxy}[3-hydroxy-5-(4-hydroxy-2-oxo-1,2-dihydropyrimidin-1-yl)-4-(sulfooxy)oxolan-2-yl]methyl)-1,4-dimethyl-6-{[14-methyl-3-({3-methyl-5-oxo-5-[(3,4,5-trimethoxy-6-methyloxan-2-yl)oxy]pentanoyl}oxy)pentadecanoyl]oxy}-3-oxo-1,4-diazepane-5-carboxylateGenerator
2-({[5-(aminomethyl)-3,4-dihydroxyoxolan-2-yl]oxy}[3-hydroxy-5-(4-hydroxy-2-oxo-1,2-dihydropyrimidin-1-yl)-4-(sulphooxy)oxolan-2-yl]methyl)-1,4-dimethyl-6-{[14-methyl-3-({3-methyl-5-oxo-5-[(3,4,5-trimethoxy-6-methyloxan-2-yl)oxy]pentanoyl}oxy)pentadecanoyl]oxy}-3-oxo-1,4-diazepane-5-carboxylateGenerator
2-({[5-(aminomethyl)-3,4-dihydroxyoxolan-2-yl]oxy}[3-hydroxy-5-(4-hydroxy-2-oxo-1,2-dihydropyrimidin-1-yl)-4-(sulphooxy)oxolan-2-yl]methyl)-1,4-dimethyl-6-{[14-methyl-3-({3-methyl-5-oxo-5-[(3,4,5-trimethoxy-6-methyloxan-2-yl)oxy]pentanoyl}oxy)pentadecanoyl]oxy}-3-oxo-1,4-diazepane-5-carboxylic acidGenerator
Chemical FormulaC53H87N5O25S
Average Mass1226.3500 Da
Monoisotopic Mass1225.54108 Da
IUPAC Name(2R,5S,6S)-2-[(S)-{[(2R,3R,4R,5S)-5-(aminomethyl)-3,4-dihydroxyoxolan-2-yl]oxy}[(2S,3R,4S,5R)-5-(2,4-dioxo-1,2,3,4-tetrahydropyrimidin-1-yl)-3-hydroxy-4-(sulfooxy)oxolan-2-yl]methyl]-1,4-dimethyl-6-{[(3S)-14-methyl-3-{[(3R)-3-methyl-5-oxo-5-{[(2R,3R,4S,5S,6S)-3,4,5-trimethoxy-6-methyloxan-2-yl]oxy}pentanoyl]oxy}pentadecanoyl]oxy}-3-oxo-1,4-diazepane-5-carboxylic acid
Traditional Name(2R,5S,6S)-2-[(S)-{[(2R,3R,4R,5S)-5-(aminomethyl)-3,4-dihydroxyoxolan-2-yl]oxy}[(2S,3R,4S,5R)-5-(2,4-dioxo-3H-pyrimidin-1-yl)-3-hydroxy-4-(sulfooxy)oxolan-2-yl]methyl]-1,4-dimethyl-6-{[(3S)-14-methyl-3-{[(3R)-3-methyl-5-oxo-5-{[(2R,3R,4S,5S,6S)-3,4,5-trimethoxy-6-methyloxan-2-yl]oxy}pentanoyl]oxy}pentadecanoyl]oxy}-3-oxo-1,4-diazepane-5-carboxylic acid
CAS Registry NumberNot Available
SMILES
COC1C(C)OC(OC(=O)CC(C)CC(=O)OC(CCCCCCCCCCC(C)C)CC(=O)OC2CN(C)C(C(OC3OC(CN)C(O)C3O)C3OC(C(OS(O)(=O)=O)C3O)N3C=CC(=O)NC3=O)C(=O)N(C)C2C(O)=O)C(OC)C1OC
InChI Identifier
InChI=1S/C53H87N5O25S/c1-27(2)18-16-14-12-10-11-13-15-17-19-30(77-34(60)22-28(3)23-35(61)80-52-47(75-9)46(74-8)42(73-7)29(4)76-52)24-36(62)78-32-26-56(5)38(48(66)57(6)37(32)50(67)68)43(82-51-40(64)39(63)31(25-54)79-51)44-41(65)45(83-84(70,71)72)49(81-44)58-21-20-33(59)55-53(58)69/h20-21,27-32,37-47,49,51-52,63-65H,10-19,22-26,54H2,1-9H3,(H,67,68)(H,55,59,69)(H,70,71,72)
InChI KeyICPWKXYVIFCCOW-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
Streptomyces sp. SANK 60405NPAtlas
Chemical Taxonomy
Description Belongs to the class of organic compounds known as dipeptides. These are organic compounds containing a sequence of exactly two alpha-amino acids joined by a peptide bond.
KingdomOrganic compounds
Super ClassOrganic acids and derivatives
ClassCarboxylic acids and derivatives
Sub ClassAmino acids, peptides, and analogues
Direct ParentDipeptides
Alternative Parents
Substituents
  • Alpha-dipeptide
  • Tetracarboxylic acid or derivatives
  • Disaccharide
  • Glycosyl compound
  • N-glycosyl compound
  • O-glycosyl compound
  • Alpha-amino acid or derivatives
  • 1,4-diazepane
  • Diazepane
  • Fatty acid ester
  • Pyrimidone
  • Hydropyrimidine
  • Oxane
  • Pyrimidine
  • Sulfuric acid monoester
  • Sulfate-ester
  • Fatty acyl
  • Alkyl sulfate
  • Sulfuric acid ester
  • Vinylogous amide
  • Tertiary carboxylic acid amide
  • Heteroaromatic compound
  • Organic sulfuric acid or derivatives
  • Oxolane
  • Tertiary amine
  • Urea
  • Tertiary aliphatic amine
  • Amino acid or derivatives
  • Carboxamide group
  • Carboxylic acid ester
  • Amino acid
  • Lactam
  • Secondary alcohol
  • Azacycle
  • Acetal
  • Organoheterocyclic compound
  • Oxacycle
  • Carboxylic acid
  • Ether
  • Dialkyl ether
  • Alcohol
  • Organopnictogen compound
  • Organic oxide
  • Carbonyl group
  • Primary aliphatic amine
  • Hydrocarbon derivative
  • Organic oxygen compound
  • Organonitrogen compound
  • Organooxygen compound
  • Organic nitrogen compound
  • Amine
  • Primary amine
  • Aromatic heteromonocyclic compound
Molecular FrameworkAromatic heteromonocyclic 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
logP0.98ALOGPS
logP-2.8ChemAxon
logS-3.8ALOGPS
pKa (Strongest Acidic)-1.9ChemAxon
pKa (Strongest Basic)8.75ChemAxon
Physiological Charge-1ChemAxon
Hydrogen Acceptor Count23ChemAxon
Hydrogen Donor Count7ChemAxon
Polar Surface Area404.08 ŲChemAxon
Rotatable Bond Count35ChemAxon
Refractivity285.01 m³·mol⁻¹ChemAxon
Polarizability123.92 ųChemAxon
Number of Rings5ChemAxon
BioavailabilityNoChemAxon
Rule of FiveNoChemAxon
Ghose FilterNoChemAxon
Veber's RuleNoChemAxon
MDDR-like RuleYesChemAxon
NPAtlas IDNPA013934
HMDB IDNot Available
DrugBank IDNot Available
Phenol Explorer Compound IDNot Available
FoodDB IDNot Available
KNApSAcK IDNot Available
Chemspider ID78444270
KEGG Compound IDNot Available
BioCyc IDNot Available
BiGG IDNot Available
Wikipedia LinkNot Available
METLIN IDNot Available
PubChem Compound102109018
PDB IDNot Available
ChEBI IDNot Available
Good Scents IDNot Available
References
General References
  1. Fujita Y, Kizuka M, Funabashi M, Ogawa Y, Ishikawa T, Nonaka K, Takatsu T: A-90289 A and B, new inhibitors of bacterial translocase I, produced by Streptomyces sp. SANK 60405. J Antibiot (Tokyo). 2011 Jul;64(7):495-501. doi: 10.1038/ja.2011.38. Epub 2011 May 18. [PubMed:21587261 ]