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Dynamic features of carboxy cytoglobin distal mutants investigated by molecular dynamics simulations

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Abstract

Cytoglobin (Cgb) is a member of hemoprotein family with roles in NO metabolism, fibrosis, and tumourigenesis. Similar to other hemoproteins, Cgb structure and functions are markedly influenced by distal key residues. The sixth ligand His81 (E7) is crucial to exogenous ligand binding, heme pocket conformation, and physiological roles of this protein. However, the effects of other key residues on heme pocket and protein biological functions are not well known. In this work, a molecular dynamics (MD) simulation study of two single mutants in CO-ligated Cgb (L46FCgbCO and L46VCgbCO) and two double mutants (L46FH81QCgbCO and L46VH81QCgbCO) was conducted to explore the effects of the key distal residues Leu46(B10) and His81(E7) on Cgb structure and functions. Results indicated that the distal mutation of B10 and E7 affected CgbCO dynamic properties on loop region fluctuation, internal cavity rearrangement, and heme motion. The distal conformation change was reflected by the distal key residues Gln62 (CD3) and Arg84(E10). The hydrogen bond between heme propionates with CD3 or E10 residues were evidently influenced by B10/E7 mutation. Furthermore, heme pocket rearrangement was also observed based on the distal pocket volume and occurrence rate of inner cavities. The mutual effects of B10 and E7 residues on protein conformational rearrangement and other dynamic features were expressed in current MD studies of CgbCO and its distal mutants, suggesting their crucial role in heme pocket stabilization, ligand binding, and Cgb biological functions.

Graphical abstract

The mutation of distal B10 and E7 residues affects the dynamic features of carboxy cytoglobin.

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Acknowledgments

This work was supported by the Fundamental Research Funds for the Central Universities and the Research Funds of Renmin University of China (No. 10XNJ011) and the National Basic Research Program (No. 2011CB808503).

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  1. Department of Chemistry, Renmin University of China, Beijing, 100872, China

    Cong Zhao & Weihong Du

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Correspondence to Weihong Du.

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Zhao, C., Du, W. Dynamic features of carboxy cytoglobin distal mutants investigated by molecular dynamics simulations. J Biol Inorg Chem 21, 251–261 (2016). https://doi.org/10.1007/s00775-016-1334-2

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