Pectin Methylesterase Estimation in Plant-Tobamovirus Interaction and Comparative Modelling, Active Site Prediction and Docking Between the Proteins Involved in the Movement of Tobamoviruses

摘要

Pectin Methylesterase (PME) activity in tobacco and tomato was estimated spectrophotometrically at different time intervals after inoculation with TMV and ToMV respectively. Models of Movement Proteins (MP) of two tobamoviruses (TMV and ToMV) and Pectin methylesterase of tomato were constructed by homology modelling. The program MODELLER was used to build models of each sequence according to the comparative protein modelling method. Model refinements were carried out using the Kollman molecular mechanical force field. Models were analyzed by Ramachandran plot method. Furthermore, the active site prediction in the modeled proteins was carried out by using the CastP server. The complex of MP of TMV- tobacco PME and MP of ToMV- tomato PME was elucidated. Based on this we predicted that, the interaction between pectin methylesterase of hosts and movement proteins of viruses is determined by using the single amino acids (at the active sites) and this determines spread of virus in host plants. The protein complex gives an insight into the interaction between host proteins and viral proteins.