Molecular dynamics in PPI (Unfused) and fused homologous proteins

Yu Yiting, Meena Kishore Sakharkar, Pandjassarame Kangueane

Research output: Chapter in Book/Report/Conference proceedingChapter

Abstract

Gene fusion produces proteins with novel structural architectures during evolution. Recent comparative genome analysis shows several cases of fusion/fission across distant phylogeny. However, the selection forces driving gene fusion are not fully understood due to the lack of structural, dynamics and kinetics data. Available structural data at PDB (protein databank) contains limited cases of structural pairs describing fused and un-fused structures. Nonetheless, we identified a pair of IGPS (imidazole glycerol phosphate synthetase) structures (comprising of HisF - glutaminase unit and HisH - cyclase unit) from S. cerevisiae (SC) and T. thermophilus (TT). The HisF-HisH structural units are domains in SC and subunits in TT. Hence, they are fused in SC and un-fused in TT. Subsequently, a domain-domain interface is formed in SC and a subunit-subunit interface in TT between HisF and HisH. The interest is to document the structure and dynamics differences between fused and un-fused IGPS. Therefore, the structures of fused IGPS in SC and un-fused IGPS in TT were probed using molecular dynamics simulation for 5ns. Simulation shows that fused IGPS in SC has larger interface area between HisF-HisH and greater radius of gyration compared to un-fused IGPS in TT. These structural features for the first time demonstrate the evolutionary advantage in generating proteins with novel structural architecture through gene fusion.

Original languageEnglish (US)
Title of host publicationProtein-Protein Interactions
PublisherNova Science Publishers, Inc.
Pages211-224
Number of pages14
ISBN (Print)9781617615481
StatePublished - Feb 2011

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Molecular Dynamics Simulation
Ligases
Glycerol
Saccharomyces cerevisiae
Molecular dynamics
Phosphates
Gene Fusion
Fusion reactions
Genes
Proteins
Glutaminase
Structural dynamics
Phylogeny
imidazole
Genome
Databases
Kinetics
Computer simulation

ASJC Scopus subject areas

  • Biochemistry, Genetics and Molecular Biology(all)

Cite this

Yiting, Y., Sakharkar, M. K., & Kangueane, P. (2011). Molecular dynamics in PPI (Unfused) and fused homologous proteins. In Protein-Protein Interactions (pp. 211-224). Nova Science Publishers, Inc..

Molecular dynamics in PPI (Unfused) and fused homologous proteins. / Yiting, Yu; Sakharkar, Meena Kishore; Kangueane, Pandjassarame.

Protein-Protein Interactions. Nova Science Publishers, Inc., 2011. p. 211-224.

Research output: Chapter in Book/Report/Conference proceedingChapter

Yiting, Y, Sakharkar, MK & Kangueane, P 2011, Molecular dynamics in PPI (Unfused) and fused homologous proteins. in Protein-Protein Interactions. Nova Science Publishers, Inc., pp. 211-224.
Yiting Y, Sakharkar MK, Kangueane P. Molecular dynamics in PPI (Unfused) and fused homologous proteins. In Protein-Protein Interactions. Nova Science Publishers, Inc. 2011. p. 211-224
Yiting, Yu ; Sakharkar, Meena Kishore ; Kangueane, Pandjassarame. / Molecular dynamics in PPI (Unfused) and fused homologous proteins. Protein-Protein Interactions. Nova Science Publishers, Inc., 2011. pp. 211-224
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