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Record Information
Version2.0
Created at2021-01-05 20:06:38 UTC
Updated at2021-07-15 17:06:45 UTC
NP-MRD IDNP0010669
Secondary Accession NumbersNone
Natural Product Identification
Common NamePaenibacterin
Provided ByNPAtlasNPAtlas Logo
DescriptionPaenibacterin belongs to the class of organic compounds known as cyclic depsipeptides. These are natural or synthetic compounds having sequences of amino and hydroxy carboxylic acid residues (usually α-amino and α-hydroxy acids) connected in a ring. The residues are commonly but not necessarily regularly alternating. Paenibacterin is found in Paenibacillus sp. Paenibacterin was first documented in 2012 (PMID: 22367082). Based on a literature review very few articles have been published on Paenibacterin.
Structure
Data?1621576412
Synonyms
ValueSource
FA-orn-val-THR-orn-ser-val-lys-ser-ile-pro-val-lys-ileMeSH
Fatty acyl-ornithyl-valyl-threonyl-ornithyl-seryl-valyl-lysyl-seryl-isoleucyl-prolyl-valyl-lysyl-isoleucineMeSH
N-[(1S)-1-{[(1S)-1-{[(3S,6S,9S,12R,13S,16S,19S,22S,25S,28S,31S,36as)-6,25-bis(4-aminobutyl)-16-(3-aminopropyl)-9,31-bis[(2S)-butan-2-yl]-1,4,7,14,17,20,23,26,29-nonahydroxy-19,28-bis(hydroxymethyl)-12-methyl-10,32-dioxo-3,22-bis(propan-2-yl)-3H,6H,9H,10H,12H,13H,16H,19H,22H,25H,28H,31H,32H,34H,35H,36H,36ah-pyrrolo[2,1-L]1-oxa-4,7,10,13,16,19,22,25,28,31-decaazacyclotetratriacontan-13-yl]-C-hydroxycarbonimidoyl}-2-methylpropyl]-C-hydroxycarbonimidoyl}-4-aminobutyl]pentadecanimidateGenerator
Chemical FormulaC79H145N17O17
Average Mass1605.1310 Da
Monoisotopic Mass1604.10044 Da
IUPAC NameN-[(1S)-1-{[(1S)-1-{[(3S,6S,9S,12R,13S,16S,19S,22S,25S,28S,31S,36aS)-6,25-bis(4-aminobutyl)-16-(3-aminopropyl)-9,31-bis[(2S)-butan-2-yl]-19,28-bis(hydroxymethyl)-12-methyl-1,4,7,10,14,17,20,23,26,29,32-undecaoxo-3,22-bis(propan-2-yl)-tetratriacontahydro-1H-pyrrolo[2,1-l]1-oxa-4,7,10,13,16,19,22,25,28,31-decaazacyclotetratriacontan-13-yl]carbamoyl}-2-methylpropyl]carbamoyl}-4-aminobutyl]pentadecanamide
Traditional NameN-[(1S)-1-{[(1S)-1-{[(3S,6S,9S,12R,13S,16S,19S,22S,25S,28S,31S,36aS)-6,25-bis(4-aminobutyl)-16-(3-aminopropyl)-9,31-bis[(2S)-butan-2-yl]-19,28-bis(hydroxymethyl)-3,22-diisopropyl-12-methyl-1,4,7,10,14,17,20,23,26,29,32-undecaoxo-tetracosahydropyrrolo[2,1-l]1-oxa-4,7,10,13,16,19,22,25,28,31-decaazacyclotetratriacontan-13-yl]carbamoyl}-2-methylpropyl]carbamoyl}-4-aminobutyl]pentadecanamide
CAS Registry NumberNot Available
SMILES
CCCCCCCCCCCCCCC(=O)N[C@@H](CCCN)C(=O)N[C@@H](C(C)C)C(=O)N[C@H]1[C@@H](C)OC(=O)[C@@H](NC(=O)[C@H](CCCCN)NC(=O)[C@@H](NC(=O)[C@@H]2CCCN2C(=O)[C@@H](NC(=O)[C@H](CO)NC(=O)[C@H](CCCCN)NC(=O)[C@@H](NC(=O)[C@H](CO)NC(=O)[C@H](CCCN)NC1=O)C(C)C)[C@@H](C)CC)C(C)C)[C@@H](C)CC
InChI Identifier
InChI=1S/C79H145N17O17/c1-13-16-17-18-19-20-21-22-23-24-25-26-39-60(99)84-53(36-31-42-82)69(102)90-63(49(8)9)76(109)95-66-52(12)113-79(112)65(51(11)15-3)94-70(103)55(35-28-30-41-81)86-75(108)62(48(6)7)92-73(106)59-38-33-44-96(59)78(111)64(50(10)14-2)93-72(105)58(46-98)89-67(100)54(34-27-29-40-80)85-74(107)61(47(4)5)91-71(104)57(45-97)88-68(101)56(37-32-43-83)87-77(66)110/h47-59,61-66,97-98H,13-46,80-83H2,1-12H3,(H,84,99)(H,85,107)(H,86,108)(H,87,110)(H,88,101)(H,89,100)(H,90,102)(H,91,104)(H,92,106)(H,93,105)(H,94,103)(H,95,109)/t50-,51-,52+,53-,54-,55-,56-,57-,58-,59-,61-,62-,63-,64-,65-,66-/m0/s1
InChI KeyGZPVAWHDCVFCAB-APSGCZIASA-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
Paenibacillus sp.NPAtlas
Chemical Taxonomy
Description Belongs to the class of organic compounds known as cyclic depsipeptides. These are natural or synthetic compounds having sequences of amino and hydroxy carboxylic acid residues (usually α-amino and α-hydroxy acids) connected in a ring. The residues are commonly but not necessarily regularly alternating.
KingdomOrganic compounds
Super ClassOrganic acids and derivatives
ClassPeptidomimetics
Sub ClassDepsipeptides
Direct ParentCyclic depsipeptides
Alternative Parents
Substituents
  • Cyclic depsipeptide
  • Macrolide lactam
  • Valine or derivatives
  • N-acyl-alpha amino acid or derivatives
  • Macrolide
  • Macrolactam
  • Alpha-amino acid ester
  • Alpha-amino acid amide
  • Alpha-amino acid or derivatives
  • N-substituted-alpha-amino acid
  • Fatty acyl
  • N-acyl-amine
  • Fatty amide
  • Tertiary carboxylic acid amide
  • Pyrrolidine
  • Secondary carboxylic acid amide
  • Lactone
  • Lactam
  • Carboxylic acid ester
  • Carboxamide group
  • Amino acid or derivatives
  • Oxacycle
  • Azacycle
  • Organoheterocyclic compound
  • Monocarboxylic acid or derivatives
  • Carboxylic acid derivative
  • Organic nitrogen compound
  • Organic oxygen compound
  • Organopnictogen compound
  • Organic oxide
  • Hydrocarbon derivative
  • Primary amine
  • Primary alcohol
  • Organooxygen compound
  • Organonitrogen compound
  • Primary aliphatic amine
  • Carbonyl group
  • Amine
  • Alcohol
  • 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
logP0.66ChemAxon
pKa (Strongest Acidic)11.46ChemAxon
pKa (Strongest Basic)10.56ChemAxon
Physiological Charge4ChemAxon
Hydrogen Acceptor Count20ChemAxon
Hydrogen Donor Count18ChemAxon
Polar Surface Area540.35 ŲChemAxon
Rotatable Bond Count41ChemAxon
Refractivity424.82 m³·mol⁻¹ChemAxon
Polarizability181.29 ųChemAxon
Number of Rings2ChemAxon
BioavailabilityNoChemAxon
Rule of FiveNoChemAxon
Ghose FilterNoChemAxon
Veber's RuleNoChemAxon
MDDR-like RuleNoChemAxon
NPAtlas IDNPA020380
HMDB IDNot Available
DrugBank IDNot Available
Phenol Explorer Compound IDNot Available
FoodDB IDNot Available
KNApSAcK IDNot Available
Chemspider ID78442854
KEGG Compound IDNot Available
BioCyc IDNot Available
BiGG IDNot Available
Wikipedia LinkPaenibacterin
METLIN IDNot Available
PubChem Compound78319277
PDB IDNot Available
ChEBI IDNot Available
Good Scents IDNot Available
References
General References
  1. Guo Y, Huang E, Yuan C, Zhang L, Yousef AE: Isolation of a Paenibacillus sp. strain and structural elucidation of its broad-spectrum lipopeptide antibiotic. Appl Environ Microbiol. 2012 May;78(9):3156-65. doi: 10.1128/AEM.07782-11. Epub 2012 Feb 24. [PubMed:22367082 ]