title: Lid closure dynamics of porcine pancreatic lipase in aqueous solution.
abstract: Pancreatic lipases hydrolyze fatty acids in dietary pathway. The activity of porcine pancreatic lipase (PPL) is controlled by lid domain along with a coenzyme, colipase. The active open-state conformation of the protein could be induced by detergents or bile salts which would be further stabilized by binding of colipase. In the absence of these interactions, the lid preferably attains a closed conformation in water.
  
  
  
  Molecular dynamic simulation was used to monitor the lid movement of PPL in open and closed conformations in water. Free energy surface was constructed from the simulation. Energy barriers and major structural changes during lid opening were evaluated.
  
  
  
  The lid closure of PPL in water from its open conformation might be initiated by columbic interactions which initially move the lid away from domain 1. This is followed by major dihedral changes on the lid residues which alter the trajectory of motion. The lid then swirls back towards domain 1 to attain closed conformation. This is accompanied with conformational changes around β5- and β9-loops as well. However, PPL in closed conformation shows only the domain movements and the lid remains in its closed conformation.
  
  
  
  PPL in closed conformation is stable in water and the open conformation is driven towards closed state. The lid follows a swirling trajectory during the closure.
  
  
  
  Conformational state of the lid regulates the activity and substrate specificity of PPL. Hence, it is essential to understand the lid dynamics and the role of specific amino acid residues involved.
authors.affiliation: Department of Biotechnology & Bioinformatics, School of Life Sciences, University of Hyderabad, Hyderabad 500 046, India.
authors.forename: Neshatul
authors.initials: N
authors.lastname: Haque
authors.affiliation: Department of Biotechnology & Bioinformatics, School of Life Sciences, University of Hyderabad, Hyderabad 500 046, India. Electronic address: nppsl@uohyd.ernet.in.
authors.forename: N Prakash
authors.initials: NP
authors.lastname: Prabhu
mesh_terms: D000595:Amino Acid Sequence / Q000235:genetics; D000818:Animals; D001665:Binding Sites; D003089:Colipases / Q000737:chemistry* / Q000235:genetics / Q000378:metabolism; D006868:Hydrolysis; D008049:Lipase / Q000737:chemistry* / Q000235:genetics / Q000378:metabolism; D056004:Molecular Dynamics Simulation; D016297:Mutagenesis, Site-Directed; D010179:Pancreas / Q000201:enzymology*; D011487:Protein Conformation; D013379:Substrate Specificity; D013552:Swine / Q000235:genetics; D014867:Water / Q000737:chemistry*
chemical_list: D003089:Colipases; D014867:Water; D008049:Lipase
keywords: Colipase; Lid closure; Molecular simulation; Pancreatic lipase; Water