Archaeal chromatin ‘slinkies’ are inherently dynamic complexes with deflected DNA wrapping pathways
Eukaryotes and many archaea package their DNA with histones. While the four eukaryotic histones wrap ~147 DNA base pairs into nucleosomes, archaeal histones form ‘nucleosome-like’ complexes that continuously wind between 60 and 500 base pairs of DNA (‘archaeasomes’), suggested by crystal contacts an...
| Main Authors: | , , |
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| Format: | Article |
| Language: | English |
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eLife Sciences Publications Ltd
2021-03-01
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| Series: | eLife |
| Subjects: | |
| Online Access: | https://elifesciences.org/articles/65587 |
| _version_ | 1818019825059889152 |
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| author | Samuel Bowerman Jeff Wereszczynski Karolin Luger |
| author_facet | Samuel Bowerman Jeff Wereszczynski Karolin Luger |
| author_sort | Samuel Bowerman |
| collection | DOAJ |
| description | Eukaryotes and many archaea package their DNA with histones. While the four eukaryotic histones wrap ~147 DNA base pairs into nucleosomes, archaeal histones form ‘nucleosome-like’ complexes that continuously wind between 60 and 500 base pairs of DNA (‘archaeasomes’), suggested by crystal contacts and analysis of cellular chromatin. Solution structures of large archaeasomes (>90 DNA base pairs) have never been directly observed. Here, we utilize molecular dynamics simulations, analytical ultracentrifugation, and cryoEM to structurally characterize the solution state of archaeasomes on longer DNA. Simulations reveal dynamics of increased accessibility without disruption of DNA-binding or tetramerization interfaces. Mg2+ concentration influences compaction, and cryoEM densities illustrate that DNA is wrapped in consecutive substates arranged 90o out-of-plane with one another. Without ATP-dependent remodelers, archaea may leverage these inherent dynamics to balance chromatin packing and accessibility. |
| first_indexed | 2024-04-14T07:57:26Z |
| format | Article |
| id | doaj.art-5f0dd6e1756d42e1b8f1d2bda0cd1a7d |
| institution | Directory Open Access Journal |
| issn | 2050-084X |
| language | English |
| last_indexed | 2024-04-14T07:57:26Z |
| publishDate | 2021-03-01 |
| publisher | eLife Sciences Publications Ltd |
| record_format | Article |
| series | eLife |
| spelling | doaj.art-5f0dd6e1756d42e1b8f1d2bda0cd1a7d2022-12-22T02:05:00ZengeLife Sciences Publications LtdeLife2050-084X2021-03-011010.7554/eLife.65587Archaeal chromatin ‘slinkies’ are inherently dynamic complexes with deflected DNA wrapping pathwaysSamuel Bowerman0https://orcid.org/0000-0003-0753-4294Jeff Wereszczynski1https://orcid.org/0000-0002-2218-3827Karolin Luger2https://orcid.org/0000-0001-5136-5331Department of Biochemistry and Howard Hughes Medical Institute, University of Colorado Boulder, Boulder, United StatesDepartment of Physics and Center for the Molecular Study of Condensed Soft Matter, Illinois Institute of Technology, Chicago, United StatesDepartment of Biochemistry and Howard Hughes Medical Institute, University of Colorado Boulder, Boulder, United StatesEukaryotes and many archaea package their DNA with histones. While the four eukaryotic histones wrap ~147 DNA base pairs into nucleosomes, archaeal histones form ‘nucleosome-like’ complexes that continuously wind between 60 and 500 base pairs of DNA (‘archaeasomes’), suggested by crystal contacts and analysis of cellular chromatin. Solution structures of large archaeasomes (>90 DNA base pairs) have never been directly observed. Here, we utilize molecular dynamics simulations, analytical ultracentrifugation, and cryoEM to structurally characterize the solution state of archaeasomes on longer DNA. Simulations reveal dynamics of increased accessibility without disruption of DNA-binding or tetramerization interfaces. Mg2+ concentration influences compaction, and cryoEM densities illustrate that DNA is wrapped in consecutive substates arranged 90o out-of-plane with one another. Without ATP-dependent remodelers, archaea may leverage these inherent dynamics to balance chromatin packing and accessibility.https://elifesciences.org/articles/65587nucleosomehistonearchaeamolecular dynamicscryo-EMAUC |
| spellingShingle | Samuel Bowerman Jeff Wereszczynski Karolin Luger Archaeal chromatin ‘slinkies’ are inherently dynamic complexes with deflected DNA wrapping pathways eLife nucleosome histone archaea molecular dynamics cryo-EM AUC |
| title | Archaeal chromatin ‘slinkies’ are inherently dynamic complexes with deflected DNA wrapping pathways |
| title_full | Archaeal chromatin ‘slinkies’ are inherently dynamic complexes with deflected DNA wrapping pathways |
| title_fullStr | Archaeal chromatin ‘slinkies’ are inherently dynamic complexes with deflected DNA wrapping pathways |
| title_full_unstemmed | Archaeal chromatin ‘slinkies’ are inherently dynamic complexes with deflected DNA wrapping pathways |
| title_short | Archaeal chromatin ‘slinkies’ are inherently dynamic complexes with deflected DNA wrapping pathways |
| title_sort | archaeal chromatin slinkies are inherently dynamic complexes with deflected dna wrapping pathways |
| topic | nucleosome histone archaea molecular dynamics cryo-EM AUC |
| url | https://elifesciences.org/articles/65587 |
| work_keys_str_mv | AT samuelbowerman archaealchromatinslinkiesareinherentlydynamiccomplexeswithdeflecteddnawrappingpathways AT jeffwereszczynski archaealchromatinslinkiesareinherentlydynamiccomplexeswithdeflecteddnawrappingpathways AT karolinluger archaealchromatinslinkiesareinherentlydynamiccomplexeswithdeflecteddnawrappingpathways |