Author

A. Suma

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Biophysics· 8

Signature Assays, Organisms & Methods

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Research Focus:protein folding & dynamics· 4 Approach:statistical model· 4 Approach:experimental assay· 3 Approach:biophysical modeling· 2 Research Focus:chromatin & epigenetic regulation· 2 Assay:ChIP-seq· 1 Assay:DNA methylation· 1 Assay:electrophysiology· 1

Frequent Co-Authors

C. Micheletti· 4 shared V. Carnevale· 3 shared L. Coronel· 2 shared A. Stopar· 1 shared A. W. Nicholson· 1 shared B. A. Garcia· 1 shared C. L. Myers· 1 shared D. M. Fowler· 1 shared

Activity by Year

2016-2023 · peak 4/yr

Co-Author Collaboration Network

10 top collaborators · 11 mutual co-author links

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4 shared papersBiophysics

C. Micheletti

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Author profile →

8 papers

Recent·Most cited

Cluster size determines internal structure of transcription factories in human cells

M. Semeraro, G. Negro, G. Forte, A. Suma, G. Gonnella, P. R. Cook, D. Marenduzzo

This study develops a chromatin polymer model to show that cluster size determines whether transcription factories are specialised or mixed, reconciling conflicting experimental results.

bioRxiv · Jan 16, 2023Biophysics

RNA Pore Translocation with Static and Periodic Forces: Effect of Secondary and Tertiary Elements on Process Activation and Duration

M. Becchi, P. Chiarantoni, A. Suma, C. Micheletti

This study uses MD simulations to analyze how secondary and tertiary structures of xrRNA affect translocation activation and duration under static and periodic forces.

bioRxiv · Jan 26, 2021Biophysics

The biophysical basis of protein domain compatibility

W. Coyote-Maestas, D. Nedrud, A. Suma, Y. He, K. A. Matreyek, D. M. Fowler, V. Carnevale, C. L. Myers, D. Schmidt

The paper uses high-throughput assays and machine learning to model biophysical interactions governing protein domain compatibility in fusion proteins.

bioRxiv · Dec 9, 2020 · PreprintBiophysics

The propofol binding sites of prokaryotic voltage-gated sodium channels

E. C. Yang, W. Bu, A. Suma, V. Carnevale, K. Grasty, P. Loll, K. Woll, N. Bhanu, B. A. Garcia, R. G. Eckenhoff, M. Covarrubias

This study identifies conserved propofol binding sites in prokaryotic voltage-gated sodium channels and shows how conformational changes at these sites mediate propofol's effects on channel function.

bioRxiv · Oct 28, 2020 · PreprintBiophysics

Directional translocation resistance of Zika xrRNA

A. Suma, L. Coronel, G. Bussi, C. Micheletti

The paper investigates how xrRNA from flaviviruses resists degradation by exonucleases while being unwound by replicases, revealing a directional mechanism of stress propagation.

bioRxiv · Jun 17, 2020Biophysics

Global and local mechanical properties control endonuclease reactivity of a DNA origami nanostructure

A. Suma, A. Stopar, A. W. Nicholson, M. Castronovo, V. Carnevale

This study uses molecular dynamics simulations to show that global and local mechanical properties of DNA origami influence endonuclease reactivity, with structural defects increasing accessibility to restriction enzymes.

bioRxiv · Jan 27, 2020Biophysics

Dynamics of supercoiled DNA with complex knots: large-scale rearrangements and persistent multi-strand interlocking

L. Coronel, A. Suma, C. Micheletti

This study uses molecular dynamics simulations to investigate how complex knots and supercoiling affect DNA ring dynamics, revealing persistent multi-strand interlocking and distinct conformational states.

Nucleic Acids Research · Jun 21, 2018Peer-reviewedBiophysics

How to fold intricately: using theory and experiments to unravel the properties of knotted proteins

S. E. Jackson, A. Suma, C. Micheletti

This paper reviews advances in understanding how knotted proteins fold, highlighting the complementarity of experimental and computational approaches.

bioRxiv · Oct 21, 2016Biophysics