MiMeDB: Showing metabocard for Cephalosporolide H (MMDBc0005238)

Record Information

Version

1.0

Status

Detected and Quantified

Creation Date

2021-05-14 22:54:43 UTC

Update Date

2025-10-07 16:04:59 UTC

Metabolite ID

MMDBc0005238

Metabolite Identification

Common Name

Cephalosporolide H

Description

Cephalosporolide H is a member of the cephalosporin class of antibiotics, characterized as a metabolite with significant synthetic interest in organic chemistry. It has been the subject of various studies focusing on its stereochemistry and total synthesis. Notably, a total synthesis strategy has been demonstrated for 12 Me2SAFLs, including cephalosporolide H (CesH) and its diastereomers, highlighting its synthetic utility (PMID:27137949 ). The synthesis of four candidate stereoisomers of cephalosporolide H has been achieved using a zinc-chelation strategy, which effectively controls the stereochemistry of oxygenated 5,5-spiroketals (PMID:23019461 ). Furthermore, research has detailed the stereocontrol of 5,5-spiroketals in the synthesis of cephalosporolide H epimers, showcasing the importance of zinc salts in overriding normal biases during the preparation of these compounds (PMID:20860404 ). This intricate chemistry underlines the potential of cephalosporolide H in both synthetic organic chemistry and its implications for biological applications, particularly in the development of novel antibiotic agents.

Structure

MOL SDF PDB SMILES InChI


  Mrv1652305152100542D          

 25 27  0  0  1  0            999 V2000
   -4.0434   -5.5105    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.1213   -7.4343    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.1300   -6.9852    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.3289   -5.9230    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6145   -5.5105    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9000   -5.9230    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1855   -5.5105    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4711   -5.9230    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.2434   -5.5105    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.0441   -6.7435    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.8511   -6.9151    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.6761   -5.4861    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.9579   -5.9230    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    3.4831   -5.6576    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    3.5693   -6.4781    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    4.7888   -5.9352    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.3763   -6.6496    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.2636   -6.2006    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    5.6093   -5.8489    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.2367   -5.3221    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.7116   -5.5875    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.8156   -6.8137    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.0011   -5.0992    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.3968   -4.8372    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.6555   -7.2986    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
  4  1  1  0  0  0  0
  5  4  1  0  0  0  0
  6  5  1  0  0  0  0
  7  6  1  0  0  0  0
  8  7  1  0  0  0  0
  9  8  1  0  0  0  0
 11 10  1  0  0  0  0
 13  9  1  1  0  0  0
 13 10  1  0  0  0  0
 14 12  1  0  0  0  0
 15 14  1  0  0  0  0
 17  2  1  0  0  0  0
 17  3  1  0  0  0  0
 17 15  1  0  0  0  0
 17 16  1  0  0  0  0
 18 11  1  0  0  0  0
 18 12  1  0  0  0  0
 19 16  2  0  0  0  0
 20 14  1  0  0  0  0
 20 16  1  0  0  0  0
 21 13  1  0  0  0  0
 18 21  1  1  0  0  0
 22 15  1  0  0  0  0
 22 18  1  0  0  0  0
 13 23  1  6  0  0  0
 14 24  1  6  0  0  0
 15 25  1  6  0  0  0
M  END
> <DATABASE_ID>
MMDBc0005238

> <DATABASE_NAME>
MIME

> <SMILES>
[H][C@@]1(CCCCCCC)CC[C@@]2(C[C@@]3([H])OC(=O)C(C)(C)[C@@]3([H])O2)O1

> <INCHI_IDENTIFIER>
InChI=1S/C18H30O4/c1-4-5-6-7-8-9-13-10-11-18(21-13)12-14-15(22-18)17(2,3)16(19)20-14/h13-15H,4-12H2,1-3H3/t13-,14-,15+,18-/m1/s1

> <INCHI_KEY>
YYZBBTIMECBEED-ZXFNITATSA-N

> <FORMULA>
C18H30O4

> <MOLECULAR_WEIGHT>
310.434

> <EXACT_MASS>
310.214409446

> <JCHEM_ACCEPTOR_COUNT>
3

> <JCHEM_ATOM_COUNT>
52

> <JCHEM_AVERAGE_POLARIZABILITY>
35.88458792803325

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
0

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
(2R,3aR,5'R,6aR)-5'-heptyl-6,6-dimethyl-tetrahydro-3H-spiro[furo[3,2-b]furan-2,2'-oxolane]-5-one

> <ALOGPS_LOGP>
4.31

> <JCHEM_LOGP>
4.983473767666667

> <ALOGPS_LOGS>
-4.87

> <JCHEM_MDDR_LIKE_RULE>
1

> <JCHEM_NUMBER_OF_RINGS>
3

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA_STRONGEST_BASIC>
-4.069453908077786

> <JCHEM_POLAR_SURFACE_AREA>
44.760000000000005

> <JCHEM_REFRACTIVITY>
82.9832

> <JCHEM_ROTATABLE_BOND_COUNT>
6

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
4.16e-03 g/l

> <JCHEM_TRADITIONAL_IUPAC>
(2R,3aR,5'R,6aR)-5'-heptyl-6,6-dimethyl-dihydro-3H-spiro[furo[3,2-b]furan-2,2'-oxolane]-5-one

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 15-MAY-21   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   15-MAY-21         0                                  
HETATM    1  C   UNK     0      -7.548 -10.286   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       7.693 -13.877   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       9.576 -13.039   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0      -6.214 -11.056   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0      -4.880 -10.286   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0      -3.547 -11.056   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0      -2.213 -10.286   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0      -0.879 -11.056   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0       0.454 -10.286   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0       1.949 -12.588   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0       3.455 -12.908   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0       4.995 -10.241   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0       1.788 -11.056   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0       6.502 -10.561   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0       6.663 -12.092   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0       8.939 -11.079   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0       8.169 -12.413   0.000  0.00  0.00           C+0
HETATM   18  C   UNK     0       4.225 -11.574   0.000  0.00  0.00           C+0
HETATM   19  O   UNK     0      10.471 -10.918   0.000  0.00  0.00           O+0
HETATM   20  O   UNK     0       7.909  -9.935   0.000  0.00  0.00           O+0
HETATM   21  O   UNK     0       3.195 -10.430   0.000  0.00  0.00           O+0
HETATM   22  O   UNK     0       5.256 -12.719   0.000  0.00  0.00           O+0
HETATM   23  H   UNK     0       1.869  -9.518   0.000  0.00  0.00           H+0
HETATM   24  H   UNK     0       6.341  -9.029   0.000  0.00  0.00           H+0
HETATM   25  H   UNK     0       6.824 -13.624   0.000  0.00  0.00           H+0
CONECT    1    4                                                            
CONECT    2   17                                                            
CONECT    3   17                                                            
CONECT    4    1    5                                                       
CONECT    5    4    6                                                       
CONECT    6    5    7                                                       
CONECT    7    6    8                                                       
CONECT    8    7    9                                                       
CONECT    9    8   13                                                       
CONECT   10   11   13                                                       
CONECT   11   10   18                                                       
CONECT   12   14   18                                                       
CONECT   13    9   10   21   23                                             
CONECT   14   12   15   20   24                                             
CONECT   15   14   17   22   25                                             
CONECT   16   17   19   20                                                  
CONECT   17    2    3   15   16                                             
CONECT   18   11   12   21   22                                             
CONECT   19   16                                                            
CONECT   20   14   16                                                       
CONECT   21   13   18                                                       
CONECT   22   15   18                                                       
CONECT   23   13                                                            
CONECT   24   14                                                            
CONECT   25   15                                                            
MASTER        0    0    0    0    0    0    0    0   25    0   54    0
END

Synonyms

Not Available

Molecular Formula

C₁₈H₃₀O₄

Average Mass

310.434

Monoisotopic Mass

310.214409446

IUPAC Name

(2R,3aR,5'R,6aR)-5'-heptyl-6,6-dimethyl-tetrahydro-3H-spiro[furo[3,2-b]furan-2,2'-oxolane]-5-one

Traditional Name

(2R,3aR,5'R,6aR)-5'-heptyl-6,6-dimethyl-dihydro-3H-spiro[furo[3,2-b]furan-2,2'-oxolane]-5-one

CAS Registry Number

Not Available

SMILES

[H][C@@]1(CCCCCCC)CC[C@@]2(C[C@@]3([H])OC(=O)C(C)(C)[C@@]3([H])O2)O1

InChI Identifier

InChI=1S/C18H30O4/c1-4-5-6-7-8-9-13-10-11-18(21-13)12-14-15(22-18)17(2,3)16(19)20-14/h13-15H,4-12H2,1-3H3/t13-,14-,15+,18-/m1/s1

InChI Key

YYZBBTIMECBEED-ZXFNITATSA-N

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as furofurans. These are organic compounds containing a two furan rings fused to each other. Furan is a five-membered aromatic ring with four carbon atoms and one oxygen atom.

Kingdom

Organic compounds

Super Class

Organoheterocyclic compounds

Class

Furofurans

Sub Class

Not Available

Direct Parent

Furofurans

Alternative Parents

Substituents

Furofuran
Ketal
Gamma butyrolactone
Monosaccharide
Oxolane
Carboxylic acid ester
Lactone
Acetal
Carboxylic acid derivative
Oxacycle
Monocarboxylic acid or derivatives
Organic oxide
Organic oxygen compound
Hydrocarbon derivative
Carbonyl group
Organooxygen compound
Aliphatic heteropolycyclic compound

Molecular Framework

Aliphatic heteropolycyclic compounds

External Descriptors

Not Available

Functional Ontology

Not Available

Physical Properties

State

Expected Solid

Predicted Properties

Property	Value	Source
Water Solubility	0.0042 g/L	ALOGPS
logP	4.31	ALOGPS
logP	4.98	ChemAxon
logS	-4.9	ALOGPS
pKa (Strongest Basic)	-4.1	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	3	ChemAxon
Hydrogen Donor Count	0	ChemAxon
Polar Surface Area	44.76 Å²	ChemAxon
Rotatable Bond Count	6	ChemAxon
Refractivity	82.98 m³·mol⁻¹	ChemAxon
Polarizability	35.88 Å³	ChemAxon
Number of Rings	3	ChemAxon
Bioavailability	Yes	ChemAxon
Rule of Five	Yes	ChemAxon
Ghose Filter	Yes	ChemAxon
Veber's Rule	No	ChemAxon
MDDR-like Rule	Yes	ChemAxon

Spectra

Not Available

Biological Properties

Cellular Locations

Not Available

Biospecimen Locations

Not Available

Tissue Locations

Not Available

Associated OMIM IDs

114500 (Colorectal cancer)
610247 (Eosinophilic esophagitis)

Human Proteins and Enzymes

Protein ID	Protein Name	Protein Type	Uniprot ID	Species

Human Pathways

Pathways

Name	SMPDB/PathBank

Microbial Pathways

Pathways

This table shows at most 5 pathways. For the full list of associated pathways:

See All Associated Bacterial Pathways

Name	SMPDB/PathBank

Metabolic Reactions

Reactions

This table shows at most 20 reactions. For the full list of associated reactions:

See All Associated Reactions

Reaction ID	Precursor	Product	Enzyme	Reaction Type	Data Source	Reference

Health Effects and Bioactivity

Health Outcome/Bioactivity	Metabolite Response/Effect	Evidence Type	Host and Biospecimen	Data Source	Reference

Microbial Sources

Superkingdom/Kingdom	Phylum	Total species	Hosts and Body Sites	Microbial Links
Eukaryota/Fungi	Ascomycota	1	Human feces	Metabolic reconstruction

Exposure Sources

Other Exposures

Source Type	Data Source	Reference

Host Biospecimen and Location

Host and Biospecimen	Status	Mean	Std	Min	Max	Units	Age	Sex	Health Condition	Data Source	Reference

External Links

HMDB ID

Not Available

DrugBank ID

Not Available

Phenol Explorer Compound ID

Not Available

FooDB ID

Not Available

KNApSAcK ID

Not Available

Chemspider ID

23076340

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

49831822

PDB ID

Not Available

ChEBI ID

Not Available

CMMC Knowledgebase

Not Available

Food Biomarker Ontology

Not Available

References

Synthesis Reference

Not Available

General References

van Santen JA, Poynton EF, Iskakova D, McMann E, Alsup TA, Clark TN, Fergusson CH, Fewer DP, Hughes AH, McCadden CA, Parra J, Soldatou S, Rudolf JD, Janssen EM, Duncan KR, Linington RG: The Natural Products Atlas 2.0: a database of microbially-derived natural products. Nucleic Acids Res. 2022 Jan 7;50(D1):D1317-D1323. doi: 10.1093/nar/gkab941. [PubMed:34718710 ]

Showing metabocard for Cephalosporolide H (MMDBc0005238)

MOL for #<Metabolite:0x00007fd3fb90e328>

3D MOL for #<Metabolite:0x00007fd3fb90e328>

3D SDF for #<Metabolite:0x00007fd3fb90e328>

3D-SDF for #<Metabolite:0x00007fd3fb90e328>

PDB for #<Metabolite:0x00007fd3fb90e328>

3D PDB for #<Metabolite:0x00007fd3fb90e328>

SMILES for #<Metabolite:0x00007fd3fb90e328>

INCHI for #<Metabolite:0x00007fd3fb90e328>

Structure for #<Metabolite:0x00007fd3fb90e328>

3D Structure for #<Metabolite:0x00007fd3fb90e328>