International Peer-Reviewed JournalOpen AccessISSN 2456-8880
irejournals@gmail.com+91-7433024337

Home / Current Issue / Paper 1704863

1704863 Vol 7 · Issue 1 Download Paper

The Insilico Molecular Docking of the Compounds of the Crude Extract of Dacryodes Edulis Leaves Against Alpha Enolase to Assess Its Activities on the Treatment of Bacterial Pneumonia

Ikpa Chinyere Benardette Chinaka Maduka Tochukwu Oluwatosin Ikezu, Ujupaul JM Adindu, Blessing Ugariogu Sylvester

Subject area: Science,Engineering and Technology  ·  Area of research: Chemistry

Abstract

The leaves of Dacryodes edulis (Burseraceae) is an herb used locally for the treatment or management of earache, respiratory problems, and generalized pneumococcal diseases. The identification of the phytochemical components, and their inhibitory activities on alpha- enolase on the development of Streptococcus pneumonia has been studied. The leaves were screened for phytochemicals using gas chromatography-mass spectroscopy (GC-MS), and Fourier-transform infrared spectroscopy (FTIR). in silico molecular docking against alpha-enolase via reduction of the plasminogen binding of Streptococcus pneumoniae was used to access the inhibitory effect of the leaves sample on the development of Streptococcus pneumonia. Results revealed presence of alkaloids, flavonoids, tannins, phenols, saponins and terpenoids. Major functional groups were O-H, and N?H groups. Out of 12 compounds with medicinal properties, molecular docking revealed 7,9-Di-tert-butyl-1-oxaspiro[4.5]deca-6,9-diene-2,8-dione (-4.3 kcal/mol), Viridiflorol (-4.1 kcal/mol), and 2,4-Di-tert-butylphenol (-4.1kcal/mol) as promising inhibitors that fabricates finest attractive charges and conventional hydrogen bonds with Streptococcus pneumoniae alpha-enolase compared with standard antibiotic Amoxicillin (-5.0Kcal/mol). These compounds could inhibit the role of alpha-enolase to restrain plasminogen binding, invasion and progression of Streptococcus pneumoniae.

Keywords

Bioactive compounds, phytochemical, Dacryodes edulis, chromatography, pneumococcal

References

[1] Maduka TDO, Ikpa CCB, Kalu GI (2020) Physicochemical Characterization and Assessment of Bioactive Chemical Compounds of Persea Americana (Avocado) Seed. Nat Ayurvedic Med. 4(1): 000229.

[2] Ikpa CCB, Maduka TDO (2020) Antimicrobial Properties of Methanol Extract of Dacryodes edulis Seed and Determination of Phytochemical Composition Using FTIR and GC-MS. Chemistry Africa, doi.org/10.1007/s42250-020-00176-x.

[3] Duru IA, Maduka TDO (2020 ) Profiling and comparison of fatty acids in the oils from the fruits of Dacryodes edulis and Canarium schweinfurthii. Journal of Medicinal Plants Studies 8(5):213-217. DOI: https://doi.org/10.22271/plants.2020.v8.i5c.1217

[4] Kumar S, Singh BR (2012) An Overview of Mechanisms and Emergence of Antimicrobial Drug Resistance; Advances in Animal and Veterinary Sciences 1(2S):7-14.

[5] Ononamadu CJ, Alhassan AJ, Aminu I, Abdullahi AI, Ihegboro GO, Owolarafe AT, Ezeigwe OC, Atiku MK, Sule MS (2020) Toxicological study of an aqueous-methanol solvent fraction of methanol extract of Dacryodesedulis leaves, Toxicology Reports7, Pages 909-918.

[6] Ajibesin KK, Ekpo BAJ, Bala DN (2006) Antimicrobial activities of the alkaloidal fractions of the leaves of Combretumzenkeri Engl. and Diels (Combretaceae). Afr J Pharmaceut Res Dev; 2: 63-66.

[7] Ikhuoria EU, Maliki M (2007) Characterization of avocado pear (Persea Americana) and African pear (Dacryodesedulis) extracts. Afr J Biotechnol 6:950–952.

[8] Mordi RC, Olasehinde GI, Okedere AP, Elegwule AN, Ayo-ajayi JI, Johnathan HO, Onibokun AE, Ajayi AA, Uchenna DO (2019) Antibacterial activity of moderately volatile components of the oil extracted from the seeds of Dacryodes edulis g. lam. Asian J Pharm Clin Res 12(3):246–249.

[9] Abubakar SY, Halilu EM, Ogbiko C, Lawal SI, Bature HB, Shamsiya A, Emem RC (2017) phytochemical screening, acute toxicity study and evaluation of in vitro antimicrobial activities of the fractions of Dacryodes edulis against selected clinical bacterial isolates. Journal of Pharmacognosy and Phytochemistry; 6(4): 1910-1915.

[10] Igoli JO, Ogaji OG, Tor-Anyiin, Igoli NP (2005) Traditional medical practices among the Igede people of Nigeria: Part II, Afr J Tradit Complement Altern Med, 2, 134-152.

[11] Ezeabara CA, Nwizugbe SI, Okeke CU (2020) Phytochemical Composition and In vitro Antimicrobial Activity of Leaf, Pulp and Seed of Dacryodesedulis (G. Don) H. J. Lam. Open Science Journal of Bioscience and Bioengineering. 7: (1) pp. 7-12.

[12] Hassan-Olajokun RE, Deji-Agboola AM, Olasunkanmi OO, Banjo TA, Olaniran O (2020) Antimicrobial Activity of Fractioned Components from Dacryodesedulis: In-vitro Study. EuropeanJournal of Medicinal Plants, 31(9),71-82. https://doi.org/10.9734/ejmp/2020/v31i930272.

[13] Hassan-Olajokun RE, Deji-Agboola AM, Olasunkanmi OO, Banjo TA, Olaniran O, Awoyeni AE, Ajayi OM (2020) Phytochemical Analysis, In vitro Antibacterial Activity and Rate of Kill of Different Fractions of Dacryodes edulis Leaf. Microbiology Research Journal International, 30(6), 23-35. https://doi.org/10.9734/mrji/2020/v30i630228.

[14] Sanni O, Erukainure OL, ShahidulIslam M (2020) Dacryodes edulis: protective antioxidant effects on diabetes pathology. Pathology Oxidative Stress and Dietary Antioxidants Chapter 20 -Pages 205-212. https://doi.org/10.1016/B978-0-12-815972-9.00020-2.

[15] Njoku OV, Obi C (2009) Phytochemical constituents of some selected medicinal plants. Afr J Pure Appl Chem 3:228–233.

[16] Mass Spectrometry Data Center. National Institute of Standards and Technology. HTTPS ://chemd ata.nist.gov/. Accessed 7 July 2020.

[17] Olasunkanmi OO, Adeniyi PO (2017) Antibacterial and Antioxidant Activities of Dacryodes edulis Methanolic Leaf Extract. JAMPS, 14(1): 1-11.

[18] Okwu DE, Nnamdi FU (2008) Evaluation of the chemical composition of Dacryodesedulis check for this species in other resources and Raphiahookerimann and Wendl exudates used in herbal medicine in South-Eastern Nigeria. Afr J Trad and ComplAltern Med; 5:194-200.

[19] Kuete V, Nana F, Ngameni B, Mbaveng AT, Keumedjio F, Ngadjui BT (2009) Antimicrobial activity of the crude extract, fractions, and compounds from the stem bark of Ficusovata (Moraceae) J Ethnopharmacol;124 (3):556–561.

[20] Ferguson LR (2001) Role of plant polyphenols in genomic stability. Mutat. Res.; 475: 89-111.

[21] Tasdemir D, Kaiser M, Brun R, Yardley V, Schmidt TJ, Tosun F (2006) Antitrypanosomal and antileishmanial activities of flavonoids and their analogs, In Vitro, Structure-Activity Relationship and Quantitative Studies. Antimicrob Agents of Chemother.; 50 (4):1352-1364.

[22] Zhang L, Ravipati AJ, Koyyalamudi SR, Jeong SC, Reddy N, et al (2011) Antioxidant and anti-inflammatory activities of selected medicinal plants containing phenolic and flavonoid compounds. J Agric and Food Chem.; 59 (23). DOI: 10.1021/jf203146e.

[23] Hodek P, Trefil P, Stiborova M (2002) Flavonoids– Potent and versatile biologically active compounds interacting with cytochrome P450. Chem. Biol. Interact; 139(1):1- 21.

[24] Pius OU, Egbuonu ACC, Obasi LN, Ejikeme PM (2011) Tannins and other phytochemicals of the Samanaeasaman pods and their antimicrobial activities. Afr. J. Pure Appl. Chem; 5(8):237-44.

[25] Buzzini P, Arapitsas P, Goretti M, Branda E, Turchetti B, Pinelliet al. (2008) Antimicrobial and antiviral activity of hydrolyzable, Tannins. Mini-review in Medicinal Chemistry; 8: 1179-1187.

[26] Koleckar V, Kubikova K, Rehakova T (2008) Condensed and Hydrolysable Tannins as antioxidants influencing the health. Mini Rev in Med Chem.; 8(5):436-447.

[27] De Moraes J, de Oliveira RN, Costa JP, Junior ALG, de Sousa DP, Freitas RM, et al. (2014) Phytol, a Diterpene Alcohol from Chlorophyll, as a Drug against Neglected Tropical Disease Schistosomiasis Mansoni. Geary TG, ed. PLoS Neglected Tropical Diseases. 8(1):2617.

[28] Parvez MK, Alam P, Arbab AH, Al-DosariMS, Alhowiriny TA, Alqasoumi SI (2018) Analysis of antioxidative and antiviral biomarkers β-amyrin, β-sitosterol, lupeol, ursolic acid in Guierasenegalensisleaves extract by validated HPTLC methods. Saudi Pharm J.; 26(5):685-93.

[29] Agbo BE (2016) Antimicrobial potential and phytochemical analysis of D. edulisagainst selected clinical bacterial isolates. Int J Pharmacogn Phyto Res.; 8(1):1795-1800.

[30] Duguid JP, Marmion BP, Swain RHA (1978). Mackie and McCartneys Medical Microbiology: A Guide to the Laboratory Diagnosis and Control of Infection, Vol 1: Microbial Infections, 13th ed., the English language Society and Church Livingstone, U.S.A, pp. 246- 256.

[31] Kharb R, Sharma PC, Yar MS (2011) Pharmacological significance of triazole scaffold, Journalof Enzyme Inhibition andMedicinalChemistry, 26:1, 1-21, DOI: 10.3109/14756360903524304.

[32] Mujeeb F,Bajpai P, Pathak N (2014) Biomed Res International, 11 pages. Doi.org/10.1155/2014/497606.

[33] Costantino L, Parenti C, di Bella M, Zanoli P, BaraldiM (1993) Pharmacol Res, 27(4), 349-358.

[34] Dandekar R, Fegade B, Bhaskar VH (2015) Journal of Pharmacognosy and Phytochemistry; 4(1), 148-154.

[35] Rajeswari G, Murugan M, Mohan VR (2013) J Pharm Biomed Sci., 29, 818-824.

[36] Pappas A (2009) "Epidermal surface lipids". Dermato-endocrinology. 1 (2):72-76. doi:10.4161/derm.1.2.7811.

[37] Laposata M (2002)Fattyacidethyl esters: recent observations. Prostaglandins,Leukotrienes and Essential Fatty Acids. 67 (2–3): 193–196.

[38] Ory SJ, Hammond CB, Yancy SG, Hendren RW, Pitt CG (1983) The effect of a biodegradablecontraceptivecapsule (Capronor)containing levonorgestrel on gonadotropin, estrogen, and progesterone levels. Am. J. Obstet. Gynecol. 145 (5): 600– 5.

[39] Tatipamula, VB, Killari KN, Prasad K, Rao GSNK, TalluriMR, Vantaku S, Bilakanti D, Srilakshmi N (2019) Cytotoxicity Studies of the Chemical Constituents from Marine Algae CharaBaltica. Indian J Pharm Sci, 81 (5), 815-823.

[40] AnandVG(2015)GC-MSanalysis ofphytochemicalcomponentsof Pseudoglochidionanamalayanum Gamble: an endangered medicinal tree. Asian J Plant Sci Res 5(12):36–44.

[41] Hassan M, Baig AA, Attique SA, Abbas S, Khan F, Zahid S, Ain QU, Usman M, Simbak NB, Kamal MA, Yusof HA. Molecular docking of alpha-enolase to elucidate the promising candidates against Streptococcus pneumoniae infection. Daru. 2021 Jun;29(1):73-84. doi: 10.1007/s40199-020-00384-3.

[42] Bergmann, S., Wild, D., Diekmann, O., Frank, R., Bracht, D., Chhatwal, G. S. & Hammerschmidt, S. (2003). Identification of a novel plasmin(ogen)- binding motif in surface displayed alpha-enolase of Streptococcus pneumoniae. Mol. Microbiol. 49, 411–423.

[43] Ku¨hnel, K. & Luisi, B. F. (2001). Crystal structure of the Escherichia coli RNA degradosome component enolase. J. Mol. Biol. 313, 583–592.

[44] Ehinger, S., Schubert, W. D., Bergmann, S., Hammerschmidt, S., & Heinz, D. W. (2004). Plasmin (ogen)-binding α-enolase from Streptococcus pneumoniae: crystal structure and evaluation of plasmin (ogen)-binding sites. Journal of molecular biology, 343(4), 997-1005.

How to cite this paper

Ikpa Chinyere Benardette Chinaka, Maduka Tochukwu Oluwatosin, Ikezu, Ujupaul JM, Adindu, Blessing, Ugariogu Sylvester "The Insilico Molecular Docking of the Compounds of the Crude Extract of Dacryodes Edulis Leaves Against Alpha Enolase to Assess Its Activities on the Treatment of Bacterial Pneumonia" Iconic Research And Engineering Journals Volume 7 Issue 1 2023 Page 573-585
Ikpa Chinyere Benardette Chinaka, Maduka Tochukwu Oluwatosin, Ikezu, Ujupaul JM, Adindu, Blessing, Ugariogu Sylvester "The Insilico Molecular Docking of the Compounds of the Crude Extract of Dacryodes Edulis Leaves Against Alpha Enolase to Assess Its Activities on the Treatment of Bacterial Pneumonia" Iconic Research And Engineering Journals, vol. 7, no. 1, Jul. 2023
Ikpa Chinyere Benardette Chinaka, Maduka Tochukwu Oluwatosin, Ikezu, Ujupaul JM, Adindu, Blessing, Ugariogu Sylvester (2023). The Insilico Molecular Docking of the Compounds of the Crude Extract of Dacryodes Edulis Leaves Against Alpha Enolase to Assess Its Activities on the Treatment of Bacterial Pneumonia. Iconic Research And Engineering Journals, 7(1).
Ikpa Chinyere Benardette Chinaka, Maduka Tochukwu Oluwatosin, Ikezu, Ujupaul JM, Adindu, Blessing, Ugariogu Sylvester "The Insilico Molecular Docking of the Compounds of the Crude Extract of Dacryodes Edulis Leaves Against Alpha Enolase to Assess Its Activities on the Treatment of Bacterial Pneumonia" Iconic Research And Engineering Journals, vol. 7, no. 1, Jul. 2023.
@article{1704863,
      author = {Ikpa Chinyere Benardette Chinaka, Maduka Tochukwu Oluwatosin, Ikezu, Ujupaul JM, Adindu, Blessing, Ugariogu Sylvester},
      title = {The Insilico Molecular Docking of the Compounds of the Crude Extract of Dacryodes Edulis Leaves Against Alpha Enolase to Assess Its Activities on the Treatment of Bacterial Pneumonia},
      journal = {Iconic Research And Engineering Journals},
      year = {2023},
      volume = {7},
      number = {1},
      pages = {573-585},
      issn = {2456-8880},
      url = {https://www.irejournals.com/formatedpaper/1704863.pdf},
      abstract = {The leaves of Dacryodes edulis (Burseraceae) is an herb used locally for the treatment or management of earache, respiratory problems, and generalized pneumococcal diseases. The identification of the phytochemical components, and their inhibitory activities on alpha- enolase on the development of Streptococcus pneumonia has been studied. The leaves were screened for phytochemicals using gas chromatography-mass spectroscopy (GC-MS), and Fourier-transform infrared spectroscopy (FTIR). in silico molecular docking against alpha-enolase via reduction of the plasminogen binding of Streptococcus pneumoniae was used to access the inhibitory effect of the leaves sample on the development of Streptococcus pneumonia. Results revealed presence of alkaloids, flavonoids, tannins, phenols, saponins and terpenoids. Major functional groups were O-H, and N?H groups. Out of 12 compounds with medicinal properties, molecular docking revealed 7,9-Di-tert-butyl-1-oxaspiro[4.5]deca-6,9-diene-2,8-dione (-4.3 kcal/mol), Viridiflorol (-4.1 kcal/mol), and 2,4-Di-tert-butylphenol (-4.1kcal/mol) as promising inhibitors that fabricates finest attractive charges and conventional hydrogen bonds with Streptococcus pneumoniae alpha-enolase compared with standard antibiotic Amoxicillin (-5.0Kcal/mol). These compounds could inhibit the role of alpha-enolase to restrain plasminogen binding, invasion and progression of Streptococcus pneumoniae.},
      keywords = {Bioactive compounds, phytochemical, Dacryodes edulis, chromatography, pneumococcal},
      month = {July},
  }