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Allosteric communication in DNA polymerase clamp loaders relies on a critical hydrogen-bonded junction

Authors: Subu Subramanian; Kent Gorday; Kendra Marcus; Matthew R Orellana; Peter Ren; Xiao Ran Luo; Michael E O'Donnell; +1 Authors

Allosteric communication in DNA polymerase clamp loaders relies on a critical hydrogen-bonded junction

Abstract

Clamp loaders are AAA+ ATPases that load sliding clamps onto DNA. We mapped the mutational sensitivity of the T4 bacteriophage sliding clamp and clamp loader by deep mutagenesis, and found that residues not involved in catalysis or binding display remarkable tolerance to mutation. An exception is a glutamine residue in the AAA+ module (Gln 118) that is not located at a catalytic or interfacial site. Gln 118 forms a hydrogen-bonded junction in a helical unit that we term the central coupler, because it connects the catalytic centers to DNA and the sliding clamp. A suppressor mutation indicates that hydrogen bonding in the junction is important, and molecular dynamics simulations reveal that it maintains rigidity in the central coupler. The glutamine-mediated junction is preserved in diverse AAA+ ATPases, suggesting that a connected network of hydrogen bonds that links ATP molecules is an essential aspect of allosteric communication in these proteins.

Keywords

DNA Replication, AAA+ proteins, allosteric communication, QH301-705.5, Protein Conformation, Science, Structural Biology and Molecular Biophysics, Glutamine, DNA-Directed DNA Polymerase, Molecular Dynamics Simulation, Virus Replication, Catalysis, Structure-Activity Relationship, Adenosine Triphosphate, Allosteric Regulation, Bacteriophage T4, Biology (General), replisome, Q, R, Hydrogen Bonding, Mutation, Medicine, ATPases Associated with Diverse Cellular Activities, bacteriophage T4

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    This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
    15
    popularity
    This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
    Top 10%
    influence
    This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
    Average
    impulse
    This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
    Top 10%
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citations
This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Citations provided by BIP!
popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
BIP!Impulse provided by BIP!
15
Top 10%
Average
Top 10%
Green
gold