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Record Information
Version1.0
Created at2020-12-09 06:31:33 UTC
Updated at2021-07-15 17:02:12 UTC
NP-MRD IDNP0009061
Secondary Accession NumbersNone
Natural Product Identification
Common NameHelvecardin B
Provided ByNPAtlasNPAtlas Logo
Description Helvecardin B is found in Pseudonocardia, Pseudonocardia compacta and Pseudonocardia compacta subsp. helvetica. It was first documented in 1991 (PMID: 2026551). Based on a literature review very few articles have been published on Helvecardin B.
Structure
Thumb
Synonyms
ValueSource
(1R,2R,18S,19S,22S,25R,28S)-2-{[(2R,4R,5S,6R)-4-amino-5-hydroxy-6-methyloxan-2-yl]oxy}-48-{[(2R,3R,4S,5R,6R)-3-{[(2S,4S,5R,6S)-4-amino-5-hydroxy-6-methyloxan-2-yl]oxy}-4,5-dihydroxy-6-(hydroxymethyl)oxan-2-yl]oxy}-5-chloro-22-(3-chloro-4-hydroxyphenyl)-19-{[(2S)-2-(4-{[(2S,3R,4S,5S,6R)-4,5-dihydroxy-3-methoxy-6-methyloxan-2-yl]oxy}phenyl)-1-hydroxy-2-(methylamino)ethylidene]amino}-18,20,23,26,32,35,37,42,44-nonahydroxy-7,13-dioxa-21,24,27,41,43-pentaazaoctacyclo[26.14.2.2,.2,.1,.1,.0,.0,]pentaconta-3,5,8,10,12(48),14,16,20,23,26,29(45),30,32,34(39),35,37,41,43,46,49-icosaene-40-carboxylateGenerator
Chemical FormulaC84H93Cl2N9O31
Average Mass1795.6000 Da
Monoisotopic Mass1793.53545 Da
IUPAC Name(1R,2R,18S,19S,22S,25R,28S,40S)-2-{[(2R,4R,5S,6R)-4-amino-5-hydroxy-6-methyloxan-2-yl]oxy}-48-{[(2R,3R,4S,5R,6R)-3-{[(2S,4S,5R,6S)-4-amino-5-hydroxy-6-methyloxan-2-yl]oxy}-4,5-dihydroxy-6-(hydroxymethyl)oxan-2-yl]oxy}-49-chloro-22-(3-chloro-4-hydroxyphenyl)-19-[(2S)-2-(4-{[(2S,3R,4S,5S,6R)-4,5-dihydroxy-3-methoxy-6-methyloxan-2-yl]oxy}phenyl)-2-(methylamino)acetamido]-18,32,35,37-tetrahydroxy-20,23,26,42,44-pentaoxo-7,13-dioxa-21,24,27,41,43-pentaazaoctacyclo[26.14.2.2^{3,6}.2^{14,17}.1^{8,12}.1^{29,33}.0^{10,25}.0^{34,39}]pentaconta-3,5,8(48),9,11,14,16,29,31,33(45),34,36,38,46,49-pentadecaene-40-carboxylic acid
Traditional Name(1R,2R,18S,19S,22S,25R,28S,40S)-2-{[(2R,4R,5S,6R)-4-amino-5-hydroxy-6-methyloxan-2-yl]oxy}-48-{[(2R,3R,4S,5R,6R)-3-{[(2S,4S,5R,6S)-4-amino-5-hydroxy-6-methyloxan-2-yl]oxy}-4,5-dihydroxy-6-(hydroxymethyl)oxan-2-yl]oxy}-49-chloro-22-(3-chloro-4-hydroxyphenyl)-19-[(2S)-2-(4-{[(2S,3R,4S,5S,6R)-4,5-dihydroxy-3-methoxy-6-methyloxan-2-yl]oxy}phenyl)-2-(methylamino)acetamido]-18,32,35,37-tetrahydroxy-20,23,26,42,44-pentaoxo-7,13-dioxa-21,24,27,41,43-pentaazaoctacyclo[26.14.2.2^{3,6}.2^{14,17}.1^{8,12}.1^{29,33}.0^{10,25}.0^{34,39}]pentaconta-3,5,8(48),9,11,14,16,29,31,33(45),34,36,38,46,49-pentadecaene-40-carboxylic acid
CAS Registry NumberNot Available
SMILES
CN[C@H](C(=O)N[C@H]1[C@@H](O)C2=CC=C(OC3=CC4=CC(OC5=C(Cl)C=C(C=C5)[C@@H](O[C@H]5C[C@@H](N)[C@H](O)[C@@H](C)O5)[C@H]5NC(=O)[C@@H](NC(=O)[C@@H]4NC(=O)[C@@H](NC1=O)C1=CC(Cl)=C(O)C=C1)C1=CC(=C(O)C=C1)C1=C(O)C=C(O)C=C1C(NC5=O)C(O)=O)=C3O[C@H]1O[C@H](CO)[C@H](O)[C@H](O)[C@H]1O[C@H]1C[C@H](N)[C@@H](O)[C@H](C)O1)C=C2)C1=CC=C(O[C@@H]2O[C@H](C)[C@@H](O)[C@H](O)[C@H]2OC)C=C1
InChI Identifier
InChI=1S/C84H93Cl2N9O31/c1-30-65(101)46(87)27-55(117-30)124-72-37-12-19-51(45(86)22-37)122-53-24-38-23-52(73(53)126-84-75(71(107)69(105)54(29-96)123-84)125-56-28-47(88)66(102)31(2)118-56)120-40-15-8-34(9-16-40)68(104)63(94-76(108)58(89-4)33-6-13-41(14-7-33)121-83-74(116-5)70(106)67(103)32(3)119-83)80(112)91-60(36-11-18-49(99)44(85)21-36)77(109)92-61(38)79(111)90-59-35-10-17-48(98)42(20-35)57-43(25-39(97)26-50(57)100)62(82(114)115)93-81(113)64(72)95-78(59)110/h6-26,30-32,46-47,54-56,58-72,74-75,83-84,89,96-107H,27-29,87-88H2,1-5H3,(H,90,111)(H,91,112)(H,92,109)(H,93,113)(H,94,108)(H,95,110)(H,114,115)/t30-,31+,32-,46-,47+,54-,55+,56+,58+,59+,60+,61-,62?,63+,64-,65-,66+,67-,68+,69+,70+,71+,72-,74-,75-,83+,84-/m1/s1
InChI KeyMVUXVKWQCKGLNW-CGHFJKKVSA-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
PseudonocardiaNPAtlas
Pseudonocardia compactaLOTUS Database
Pseudonocardia compacta subsp. helvetica--
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
logP1.24ALOGPS
logP-3.8ChemAxon
logS-4ALOGPS
pKa (Strongest Acidic)2.98ChemAxon
pKa (Strongest Basic)9.94ChemAxon
Physiological Charge2ChemAxon
Hydrogen Acceptor Count32ChemAxon
Hydrogen Donor Count22ChemAxon
Polar Surface Area620.26 ŲChemAxon
Rotatable Bond Count16ChemAxon
Refractivity430.5 m³·mol⁻¹ChemAxon
Polarizability178.06 ųChemAxon
Number of Rings14ChemAxon
BioavailabilityNoChemAxon
Rule of FiveNoChemAxon
Ghose FilterNoChemAxon
Veber's RuleNoChemAxon
MDDR-like RuleYesChemAxon
NPAtlas IDNPA020676
HMDB IDNot Available
DrugBank IDNot Available
Phenol Explorer Compound IDNot Available
FoodDB IDNot Available
KNApSAcK IDC00017077
Chemspider ID78442924
KEGG Compound IDNot Available
BioCyc IDNot Available
BiGG IDNot Available
Wikipedia LinkNot Available
METLIN IDNot Available
PubChem Compound139588918
PDB IDNot Available
ChEBI IDNot Available
Good Scents IDNot Available
References
General References
  1. Takeuchi M, Takahashi S, Inukai M, Nakamura T, Kinoshita T: Helvecardins A and B, novel glycopeptide antibiotics. II. Structural elucidation. J Antibiot (Tokyo). 1991 Mar;44(3):271-7. doi: 10.7164/antibiotics.44.271. [PubMed:2026551 ]