Molecular phylogeny, 3D-structural insights, docking and mechanisms of action of plant beta-galactosidases

Md Anowar Hossain, Hairul Azman Roslan, Md Rezaul Karim, Yoshinobu Kimura

Research output: Contribution to journalArticlepeer-review

1 Citation (Scopus)

Abstract

Beta-galactosidase (BGAL) is an exoglycosidase that catalyses the hydrolysis of terminal β-linked galactose residues. To better understand the molecular characteristics and structural insights of mango BGAL (MiBGAL), we performed the sequence analyses, reconstruction of the evolutionary tree, homology modelling and molecular docking. BGALs are widely distributed enzymes that evolved from a common bacterial ancestor. Plant BGALs (pBGALs) belong to glycosyl hydrolase-35(GH35) family and had close similarities with fungi BGALs. Three conserved motifs and GH35 putative active site with a consensus sequence G-G-P-[LIVM](2)-x(2)-Q-x-E-N-E-[FY] were identified in 67 BGAL sequences. Modelled 3D structure of MiBGAL is composed of a catalytic TIM barrel domain (domain-I) and three other β-domains, II, III &IV. Structural studies identified the residues Glu182 and Glu251 as the proton donor and nucleophile, respectively in pBGALs that could function through retaining mechanism. p-nitrophenyl-β-Dgalactopyranoside and 2-[4-(2-hydroxyethyl)piperazin-1-yl]ethanesulfonic acid could be potential substrate and inhibitor, respectively among the dockedligands for both tomato BGAL4 and MiBGAL.

Original languageEnglish
Pages (from-to)149-179
Number of pages31
JournalInternational Journal of Bioinformatics Research and Applications
Volume12
Issue number2
DOIs
Publication statusPublished - 2016

Keywords

  • Beta-galactosidase
  • Homology modelling
  • Ligands
  • Molecular docking
  • Phylogenetics

ASJC Scopus subject areas

  • Health Informatics
  • Health Information Management
  • Biomedical Engineering
  • Clinical Biochemistry

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