MiMeDB: Showing metabocard for Pentalenene (MMDBc0002390)

Record Information

Version

1.0

Status

Detected and Quantified

Creation Date

2021-05-14 20:48:00 UTC

Update Date

2025-10-07 16:04:35 UTC

Metabolite ID

MMDBc0002390

Metabolite Identification

Common Name

Pentalenene

Description

Pentalenene is a tricyclic sesquiterpene belonging to the class of terpenoids, originally identified as an antibiotic metabolite in Streptomyces species. It has garnered attention as a promising candidate for advanced aviation fuels due to its potential value in sustainable energy applications (PMID:40680273 ). Despite its significance, pentalenene biosynthesis does not naturally occur in photosynthetic microorganisms, which poses challenges for its cost-effective production (PMID:40680273 ). Recent research has successfully established a photosynthetic platform for pentalenene production by expressing a heterologous pentalenene synthase (penA) in the green microalga Chlamydomonas reinhardtii (PMID:40680273 ). To further enhance production, the methylerythritol phosphate (MEP) pathway was engineered by overexpressing key enzymes, resulting in a notable pentalenene titer of 13.65 mg/L under photomixotrophic conditions (PMID:40680273 ). Metabolite profiling indicated that elevated levels of MEP pathway intermediates and precursors were critical for achieving high yields (PMID:40680273 ). The engineered strains demonstrated cell growth and photosynthetic activity comparable to untransformed strains, marking a significant advancement in the production of pentalenene and other sesquiterpenes in microalgae and industrial microorganisms (PMID:40680273 ). Mechanistic insights into pentalenene biosynthesis have also been explored, enhancing our understanding of its production (PMID:38240688 ).

Structure

MOL SDF PDB SMILES InChI


  Mrv1652305142122482D          

 18 20  0  0  1  0            999 V2000
    1.2564    3.2338    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.3838   -0.1553    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.0408    0.3407    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.1476   -0.3083    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.0739    0.5122    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.8190    1.2968    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.5663    2.5663    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.4887    1.2968    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.4088    0.5122    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.7413    2.5663    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.8989    0.5122    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.8213    1.7817    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    1.4864    1.7817    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    3.2338    0.5122    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.1538    1.2968    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    1.5244   -0.2229    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.4887    2.2666    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.8190    2.2666    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
  6  5  1  0  0  0  0
 10  1  1  0  0  0  0
 10  7  2  0  0  0  0
 11  2  1  6  0  0  0
 11  5  1  0  0  0  0
 12  7  1  0  0  0  0
 12  8  1  0  0  0  0
 13  6  1  0  0  0  0
 13 10  1  0  0  0  0
 14  3  1  0  0  0  0
 14  4  1  0  0  0  0
 14  8  1  0  0  0  0
 14  9  1  0  0  0  0
 15  9  1  6  0  0  0
 15 11  1  0  0  0  0
 15 12  1  0  0  0  0
 15 13  1  0  0  0  0
 11 16  1  1  0  0  0
 12 17  1  1  0  0  0
 13 18  1  6  0  0  0
M  END
> <DATABASE_ID>
MMDBc0002390

> <DATABASE_NAME>
MIME

> <SMILES>
[H][C@@]1(C)CC[C@@]2([H])C(C)=C[C@]3([H])CC(C)(C)C[C@]123

> <INCHI_IDENTIFIER>
InChI=1S/C15H24/c1-10-7-12-8-14(3,4)9-15(12)11(2)5-6-13(10)15/h7,11-13H,5-6,8-9H2,1-4H3/t11-,12-,13+,15-/m1/s1

> <INCHI_KEY>
YGIVIHRLDOVJLL-GUIRCDHDSA-N

> <FORMULA>
C15H24

> <MOLECULAR_WEIGHT>
204.357

> <EXACT_MASS>
204.187800773

> <JCHEM_ACCEPTOR_COUNT>
0

> <JCHEM_ATOM_COUNT>
39

> <JCHEM_AVERAGE_POLARIZABILITY>
25.760470650069195

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
0

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
(1R,2R,5S,8S)-2,6,10,10-tetramethyltricyclo[6.3.0.0^{1,5}]undec-6-ene

> <ALOGPS_LOGP>
4.90

> <JCHEM_LOGP>
4.101158186333333

> <ALOGPS_LOGS>
-5.10

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
3

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_POLAR_SURFACE_AREA>
0.0

> <JCHEM_REFRACTIVITY>
65.6944

> <JCHEM_ROTATABLE_BOND_COUNT>
0

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
1.63e-03 g/l

> <JCHEM_TRADITIONAL_IUPAC>
(1R,2R,5S,8S)-2,6,10,10-tetramethyltricyclo[6.3.0.0^{1,5}]undec-6-ene

> <JCHEM_VEBER_RULE>
1

$$$$

HEADER    PROTEIN                                 14-MAY-21   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   14-MAY-21         0                                  
HETATM    1  C   UNK     0       2.345   6.036   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       4.450  -0.290   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       7.543   0.636   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       5.875  -0.575   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       2.005   0.956   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       1.529   2.421   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       4.791   4.791   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0       6.512   2.421   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0       4.496   0.956   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0       3.251   4.791   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0       3.545   0.956   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0       5.266   3.326   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0       2.775   3.326   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0       6.036   0.956   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0       4.021   2.421   0.000  0.00  0.00           C+0
HETATM   16  H   UNK     0       2.845  -0.416   0.000  0.00  0.00           H+0
HETATM   17  H   UNK     0       6.512   4.231   0.000  0.00  0.00           H+0
HETATM   18  H   UNK     0       1.529   4.231   0.000  0.00  0.00           H+0
CONECT    1   10                                                            
CONECT    2   11                                                            
CONECT    3   14                                                            
CONECT    4   14                                                            
CONECT    5    6   11                                                       
CONECT    6    5   13                                                       
CONECT    7   10   12                                                       
CONECT    8   12   14                                                       
CONECT    9   14   15                                                       
CONECT   10    1    7   13                                                  
CONECT   11    2    5   15   16                                             
CONECT   12    7    8   15   17                                             
CONECT   13    6   10   15   18                                             
CONECT   14    3    4    8    9                                             
CONECT   15    9   11   12   13                                             
CONECT   16   11                                                            
CONECT   17   12                                                            
CONECT   18   13                                                            
MASTER        0    0    0    0    0    0    0    0   18    0   40    0
END

Synonyms

Value	Source
(+)-Pentalenene	ChEBI
(1alpha,3a alpha,5a beta,8AR*)-1,2,3,3a,5a,6,7,8-octahydro-1,4,7,7-tetramethylcyclopenta(c)pentalene	ChEBI
(1R,3AS,5as,8ar)-1,2,3,3a,5a,6,7,8-octahydro-1,4,7,7-tetramethylcyclopenta[c]pentalene	ChEBI
(1a,3a a,5a b,8AR*)-1,2,3,3a,5a,6,7,8-octahydro-1,4,7,7-tetramethylcyclopenta(c)pentalene	Generator
(1Α,3a α,5a β,8ar*)-1,2,3,3a,5a,6,7,8-octahydro-1,4,7,7-tetramethylcyclopenta(c)pentalene	Generator

Molecular Formula

C₁₅H₂₄

Average Mass

204.357

Monoisotopic Mass

204.187800773

IUPAC Name

(1R,2R,5S,8S)-2,6,10,10-tetramethyltricyclo[6.3.0.0^{1,5}]undec-6-ene

Traditional Name

(1R,2R,5S,8S)-2,6,10,10-tetramethyltricyclo[6.3.0.0^{1,5}]undec-6-ene

CAS Registry Number

Not Available

SMILES

[H][C@@]1(C)CC[C@@]2([H])C(C)=C[C@]3([H])CC(C)(C)C[C@]123

InChI Identifier

InChI=1S/C15H24/c1-10-7-12-8-14(3,4)9-15(12)11(2)5-6-13(10)15/h7,11-13H,5-6,8-9H2,1-4H3/t11-,12-,13+,15-/m1/s1

InChI Key

YGIVIHRLDOVJLL-GUIRCDHDSA-N

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as angular triquinanes. These are triquinane with a structure based on a [6.3.0.0^1,5] Undecane carbon skeleton.

Kingdom

Organic compounds

Super Class

Lipids and lipid-like molecules

Class

Prenol lipids

Sub Class

Sesquiterpenoids

Direct Parent

Angular triquinanes

Alternative Parents

Substituents

Angular triquinane sesquiterpenoid
Branched unsaturated hydrocarbon
Polycyclic hydrocarbon
Cyclic olefin
Unsaturated aliphatic hydrocarbon
Unsaturated hydrocarbon
Olefin
Hydrocarbon
Aliphatic homopolycyclic compound

Molecular Framework

Aliphatic homopolycyclic compounds

External Descriptors

sesquiterpene (CHEBI:17251 )
ortho-fused tricyclic hydrocarbon (CHEBI:17251 )

Functional Ontology

Not Available

Physical Properties

State

Expected Solid

Predicted Properties

Property	Value	Source
Water Solubility	0.0016 g/L	ALOGPS
logP	4.9	ALOGPS
logP	4.1	ChemAxon
logS	-5.1	ALOGPS
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	0	ChemAxon
Hydrogen Donor Count	0	ChemAxon
Polar Surface Area	0 Å²	ChemAxon
Rotatable Bond Count	0	ChemAxon
Refractivity	65.69 m³·mol⁻¹	ChemAxon
Polarizability	25.76 Å³	ChemAxon
Number of Rings	3	ChemAxon
Bioavailability	Yes	ChemAxon
Rule of Five	Yes	ChemAxon
Ghose Filter	Yes	ChemAxon
Veber's Rule	Yes	ChemAxon
MDDR-like Rule	No	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
MMDBr0024876	Pentalenene	di-mu-Sulfido-diiron(2+)	Pentalenene oxygenase	Oxygenation	RHEA	34755880

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	Microbial Links
Bacteria	Actinobacteria	3	Metabolic reconstruction
Bacteria/Eubacteria	Actinobacteria	1	Metabolic reconstruction
Eukaryota/Fungi	Basidiomycota	1

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

9184241

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

11009055

PDB ID

Not Available

ChEBI ID

17251

CMMC Knowledgebase

Not Available

Food Biomarker Ontology

Not Available

References

Synthesis Reference

Not Available

General References

Bansal P, Morgat A, Axelsen KB, Muthukrishnan V, Coudert E, Aimo L, Hyka-Nouspikel N, Gasteiger E, Kerhornou A, Neto TB, Pozzato M, Blatter MC, Ignatchenko A, Redaschi N, Bridge A: Rhea, the reaction knowledgebase in 2022. Nucleic Acids Res. 2022 Jan 7;50(D1):D693-D700. doi: 10.1093/nar/gkab1016. [PubMed:34755880 ]

Showing metabocard for Pentalenene (MMDBc0002390)

MOL for #<Metabolite:0x00007fd43585feb0>

3D MOL for #<Metabolite:0x00007fd43585feb0>

3D SDF for #<Metabolite:0x00007fd43585feb0>

3D-SDF for #<Metabolite:0x00007fd43585feb0>

PDB for #<Metabolite:0x00007fd43585feb0>

3D PDB for #<Metabolite:0x00007fd43585feb0>

SMILES for #<Metabolite:0x00007fd43585feb0>

INCHI for #<Metabolite:0x00007fd43585feb0>

Structure for #<Metabolite:0x00007fd43585feb0>

3D Structure for #<Metabolite:0x00007fd43585feb0>