Cargando…

Novel interaction interfaces mediate the interaction between the NEIL1 DNA glycosylase and mitochondrial transcription factor A

The maintenance of human mitochondrial DNA (mtDNA) is critical for proper cellular function as damage to mtDNA, if left unrepaired, can lead to a diverse array of pathologies. Of the pathways identified to participate in DNA repair within the mitochondria, base excision repair (BER) is the most exte...

Descripción completa

Detalles Bibliográficos
Autores principales: Sharma, Nidhi, Thompson, Marlo K., Arrington, Jennifer F., Terry, Dava M., Chakravarthy, Srinivas, Prevelige, Peter E., Prakash, Aishwarya
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9354671/
https://www.ncbi.nlm.nih.gov/pubmed/35938152
http://dx.doi.org/10.3389/fcell.2022.893806
_version_ 1784763123710820352
author Sharma, Nidhi
Thompson, Marlo K.
Arrington, Jennifer F.
Terry, Dava M.
Chakravarthy, Srinivas
Prevelige, Peter E.
Prakash, Aishwarya
author_facet Sharma, Nidhi
Thompson, Marlo K.
Arrington, Jennifer F.
Terry, Dava M.
Chakravarthy, Srinivas
Prevelige, Peter E.
Prakash, Aishwarya
author_sort Sharma, Nidhi
collection PubMed
description The maintenance of human mitochondrial DNA (mtDNA) is critical for proper cellular function as damage to mtDNA, if left unrepaired, can lead to a diverse array of pathologies. Of the pathways identified to participate in DNA repair within the mitochondria, base excision repair (BER) is the most extensively studied. Protein-protein interactions drive the step-by-step coordination required for the successful completion of this pathway and are important for crosstalk with other mitochondrial factors involved in genome maintenance. Human NEIL1 is one of seven DNA glycosylases that initiates BER in both the nuclear and mitochondrial compartments. In the current work, we scrutinized the interaction between NEIL1 and mitochondrial transcription factor A (TFAM), a protein that is essential for various aspects of mtDNA metabolism. We note, for the first time, that both the N- and C- terminal domains of NEIL1 interact with TFAM revealing a unique NEIL1 protein-binding interface. The interaction between the two proteins, as observed biochemically, appears to be transient and is most apparent at concentrations of low salt. The presence of DNA (or RNA) also positively influences the interaction between the two proteins, and molar mass estimates indicate that duplex DNA is required for complex formation at higher salt concentrations. Hydrogen deuterium exchange mass spectrometry data reveal that both proteins exchange less deuterium upon DNA binding, indicative of an interaction, and the addition of NEIL1 to the TFAM-DNA complex alters the interaction landscape. The transcriptional activity of TFAM appears to be independent of NEIL1 expression under normal cellular conditions, however, in the presence of DNA damage, we observe a significant reduction in the mRNA expression of TFAM-transcribed mitochondrial genes in the absence of NEIL1. Overall, our data indicate that the interaction between NEIL1 and TFAM can be modulated by local environment such as salt concentrations, protein availability, the presence of nucleic acids, as well as the presence of DNA damage.
format Online
Article
Text
id pubmed-9354671
institution National Center for Biotechnology Information
language English
publishDate 2022
publisher Frontiers Media S.A.
record_format MEDLINE/PubMed
spelling pubmed-93546712022-08-06 Novel interaction interfaces mediate the interaction between the NEIL1 DNA glycosylase and mitochondrial transcription factor A Sharma, Nidhi Thompson, Marlo K. Arrington, Jennifer F. Terry, Dava M. Chakravarthy, Srinivas Prevelige, Peter E. Prakash, Aishwarya Front Cell Dev Biol Cell and Developmental Biology The maintenance of human mitochondrial DNA (mtDNA) is critical for proper cellular function as damage to mtDNA, if left unrepaired, can lead to a diverse array of pathologies. Of the pathways identified to participate in DNA repair within the mitochondria, base excision repair (BER) is the most extensively studied. Protein-protein interactions drive the step-by-step coordination required for the successful completion of this pathway and are important for crosstalk with other mitochondrial factors involved in genome maintenance. Human NEIL1 is one of seven DNA glycosylases that initiates BER in both the nuclear and mitochondrial compartments. In the current work, we scrutinized the interaction between NEIL1 and mitochondrial transcription factor A (TFAM), a protein that is essential for various aspects of mtDNA metabolism. We note, for the first time, that both the N- and C- terminal domains of NEIL1 interact with TFAM revealing a unique NEIL1 protein-binding interface. The interaction between the two proteins, as observed biochemically, appears to be transient and is most apparent at concentrations of low salt. The presence of DNA (or RNA) also positively influences the interaction between the two proteins, and molar mass estimates indicate that duplex DNA is required for complex formation at higher salt concentrations. Hydrogen deuterium exchange mass spectrometry data reveal that both proteins exchange less deuterium upon DNA binding, indicative of an interaction, and the addition of NEIL1 to the TFAM-DNA complex alters the interaction landscape. The transcriptional activity of TFAM appears to be independent of NEIL1 expression under normal cellular conditions, however, in the presence of DNA damage, we observe a significant reduction in the mRNA expression of TFAM-transcribed mitochondrial genes in the absence of NEIL1. Overall, our data indicate that the interaction between NEIL1 and TFAM can be modulated by local environment such as salt concentrations, protein availability, the presence of nucleic acids, as well as the presence of DNA damage. Frontiers Media S.A. 2022-07-22 /pmc/articles/PMC9354671/ /pubmed/35938152 http://dx.doi.org/10.3389/fcell.2022.893806 Text en Copyright © 2022 Sharma, Thompson, Arrington, Terry, Chakravarthy, Prevelige and Prakash. https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Cell and Developmental Biology
Sharma, Nidhi
Thompson, Marlo K.
Arrington, Jennifer F.
Terry, Dava M.
Chakravarthy, Srinivas
Prevelige, Peter E.
Prakash, Aishwarya
Novel interaction interfaces mediate the interaction between the NEIL1 DNA glycosylase and mitochondrial transcription factor A
title Novel interaction interfaces mediate the interaction between the NEIL1 DNA glycosylase and mitochondrial transcription factor A
title_full Novel interaction interfaces mediate the interaction between the NEIL1 DNA glycosylase and mitochondrial transcription factor A
title_fullStr Novel interaction interfaces mediate the interaction between the NEIL1 DNA glycosylase and mitochondrial transcription factor A
title_full_unstemmed Novel interaction interfaces mediate the interaction between the NEIL1 DNA glycosylase and mitochondrial transcription factor A
title_short Novel interaction interfaces mediate the interaction between the NEIL1 DNA glycosylase and mitochondrial transcription factor A
title_sort novel interaction interfaces mediate the interaction between the neil1 dna glycosylase and mitochondrial transcription factor a
topic Cell and Developmental Biology
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9354671/
https://www.ncbi.nlm.nih.gov/pubmed/35938152
http://dx.doi.org/10.3389/fcell.2022.893806
work_keys_str_mv AT sharmanidhi novelinteractioninterfacesmediatetheinteractionbetweentheneil1dnaglycosylaseandmitochondrialtranscriptionfactora
AT thompsonmarlok novelinteractioninterfacesmediatetheinteractionbetweentheneil1dnaglycosylaseandmitochondrialtranscriptionfactora
AT arringtonjenniferf novelinteractioninterfacesmediatetheinteractionbetweentheneil1dnaglycosylaseandmitochondrialtranscriptionfactora
AT terrydavam novelinteractioninterfacesmediatetheinteractionbetweentheneil1dnaglycosylaseandmitochondrialtranscriptionfactora
AT chakravarthysrinivas novelinteractioninterfacesmediatetheinteractionbetweentheneil1dnaglycosylaseandmitochondrialtranscriptionfactora
AT preveligepetere novelinteractioninterfacesmediatetheinteractionbetweentheneil1dnaglycosylaseandmitochondrialtranscriptionfactora
AT prakashaishwarya novelinteractioninterfacesmediatetheinteractionbetweentheneil1dnaglycosylaseandmitochondrialtranscriptionfactora