title: Sensitivity of polarization fluctuations to the nature of protein-water interactions: study of biological water in four different protein-water systems.
abstract: Since the time of Kirkwood, observed deviations in magnitude of the dielectric constant of aqueous protein solution from that of neat water (∼80) and slower decay of polarization have been subjects of enormous interest, controversy, and debate. Most of the common proteins have large permanent dipole moments (often more than 100 D) that can influence structure and dynamics of even distant water molecules, thereby affecting collective polarization fluctuation of the solution, which in turn can significantly alter solution's dielectric constant. Therefore, distance dependence of polarization fluctuation can provide important insight into the nature of biological water. We explore these aspects by studying aqueous solutions of four different proteins of different characteristics and varying sizes, chicken villin headpiece subdomain (HP-36), immunoglobulin binding domain protein G (GB1), hen-egg white lysozyme (LYS), and Myoglobin (MYO). We simulate fairly large systems consisting of single protein molecule and 20000-30000 water molecules (varied according to the protein size), providing a concentration in the range of ∼2-3 mM. We find that the calculated dielectric constant of the system shows a noticeable increment in all the cases compared to that of neat water. Total dipole moment auto time correlation function of water ⟨δMW(0)δMW(t)⟩ is found to be sensitive to the nature of the protein. Surprisingly, dipole moment of the protein and total dipole moment of the water molecules are found to be only weakly coupled. Shellwise decomposition of water molecules around protein reveals higher density of first layer compared to the succeeding ones. We also calculate heuristic effective dielectric constant of successive layers and find that the layer adjacent to protein has much lower value (∼50). However, progressive layers exhibit successive increment of dielectric constant, finally reaching a value close to that of bulk 4-5 layers away. We also calculate shellwise orientational correlation function and tetrahedral order parameter to understand the local dynamics and structural re-arrangement of water. Theoretical analysis providing simple method for calculation of shellwise local dielectric constant and implication of these findings are elaborately discussed in the present work.
authors.affiliation: SSCU, Indian Institute of Science, Bangalore 560012, India.
authors.forename: Rikhia
authors.initials: R
authors.lastname: Ghosh
authors.affiliation: SSCU, Indian Institute of Science, Bangalore 560012, India.
authors.forename: Saikat
authors.initials: S
authors.lastname: Banerjee
authors.affiliation: SSCU, Indian Institute of Science, Bangalore 560012, India.
authors.forename: Milan
authors.initials: M
authors.lastname: Hazra
authors.affiliation: SSCU, Indian Institute of Science, Bangalore 560012, India.
authors.forename: Susmita
authors.initials: S
authors.lastname: Roy
authors.affiliation: SSCU, Indian Institute of Science, Bangalore 560012, India.
authors.forename: Biman
authors.initials: B
authors.lastname: Bagchi
mesh_terms: D000818:Animals; D002645:Chickens; D008958:Models, Molecular; D009113:Muramidase / Q000737:chemistry; D009211:Myoglobin / Q000737:chemistry; D016900:Neurofilament Proteins / Q000737:chemistry; D010446:Peptide Fragments / Q000737:chemistry; D011506:Proteins / Q000737:chemistry*; D055672:Static Electricity; D014867:Water / Q000737:chemistry*
chemical_list: D009211:Myoglobin; D016900:Neurofilament Proteins; D010446:Peptide Fragments; D011506:Proteins; C115223:villin headpiece subdomain peptide; D014867:Water; C421864:hen egg lysozyme; D009113:Muramidase