Solvent Quality and Nonbiological Oligomer Folding: Revisiting Conventional Paradigms

Authors: Foumthuim, Cedrix J. Dongmo, Arcangeli, Tobia, Škrbić, Tatjana, Giacometti, Achille

Subject Terms: Condensed Matter - Soft Condensed Matter

Access URL: http://arxiv.org/abs/2407.20686

Phase behaviour and self-assembly of semiflexible polymers in poor-solvent solutions

Authors: Arcangeli, Tobia, Škrbić, Tatjana, Azote, Somiealo, Marcato, Davide, Rosa, Angelo, Banavar, Jayanth R., Piazza, Roberto, Maritan, Amos, Giacometti, Achille

Subject Terms: Condensed Matter - Soft Condensed Matter

Access URL: http://arxiv.org/abs/2405.11287

Amino acid characteristics in protein native state structures

Authors: Škrbić, Tatjana, Giacometti, Achille, Hoang, Trinh X., Maritan, Amos, Banavar, Jayanth R.

Subject Terms: Condensed Matter - Soft Condensed Matter, Quantitative Biology - Biomolecules

Access URL: http://arxiv.org/abs/2312.07304

III. Geometrical framework for thinking about globular proteins: turns in proteins

Authors: Škrbić, Tatjana, Giacometti, Achille, Hoang, Trinh X., Maritan, Amos, Banavar, Jayanth R.

Subject Terms: Condensed Matter - Soft Condensed Matter, Quantitative Biology - Biomolecules

Access URL: http://arxiv.org/abs/2312.07293

II. Geometrical framework for thinking about globular proteins: the power of poking

Authors: Škrbić, Tatjana, Giacometti, Achille, Hoang, Trinh X., Maritan, Amos, Banavar, Jayanth R.

Subject Terms: Condensed Matter - Soft Condensed Matter, Physics - Biological Physics, Quantitative Biology - Biomolecules

Access URL: http://arxiv.org/abs/2306.10867

A geometrical framework for thinking about proteins

Authors: Banavar, Jayanth R., Giacometti, Achille, Hoang, Trinh X., Maritan, Amos, Škrbić, Tatjana

Subject Terms: Condensed Matter - Soft Condensed Matter, Physics - Biological Physics, Quantitative Biology - Biomolecules

Access URL: http://arxiv.org/abs/2306.10853

Proteins -- a celebration of consilience

Authors: Škrbić, Tatjana, Hoang, Trinh Xuan, Giacometti, Achille, Maritan, Amos, Banavar, Jayanth R.

Subject Terms: Quantitative Biology - Biomolecules, Condensed Matter - Soft Condensed Matter, Condensed Matter - Statistical Mechanics

Access URL: http://arxiv.org/abs/2111.03025

Marginally compact phase and ordered ground states in a model polymer with side spheres

Authors: Škrbić, Tatjana, Hoang, Trinh Xuan, Giacometti, Achille, Maritan, Amos, Banavar, Jayanth R.

Source: Phys. Rev. E 104, 012501 (2021)

Subject Terms: Condensed Matter - Soft Condensed Matter, Condensed Matter - Statistical Mechanics

Access URL: http://arxiv.org/abs/2106.07829

Amino-Acid Characteristics in Protein Native State Structures.

Authors: Škrbić, Tatjana^1,2 (AUTHOR) achille@unive.it, Giacometti, Achille^1,3 (AUTHOR), Hoang, Trinh X.⁴ (AUTHOR) txhoang@iop.vast.vn, Maritan, Amos⁵ (AUTHOR) amos.maritan@unipd.it, Banavar, Jayanth R.² (AUTHOR)

Source: Biomolecules (2218-273X). Jul2024, Vol. 14 Issue 7, p805. 15p.

Subject Terms: *AMINO acid sequence, *PROTEIN structure, *AMINO acids, *PROTEIN engineering, *SPINE

Spontaneous dimensional reduction and novel ground state degeneracy in a simple chain model

Authors: Škrbić, Tatjana, Hoang, Trinh Xuan, Giacometti, Achille, Maritan, Amos, Banavar, Jayanth R.

Source: Phys. Rev. E 104, 012101 (2021)

Subject Terms: Condensed Matter - Statistical Mechanics, Condensed Matter - Soft Condensed Matter, Physics - Biological Physics

Access URL: http://arxiv.org/abs/2103.07804

Local sequence-structure relationships in proteins

Authors: Škrbić, Tatjana, Maritan, Amos, Giacometti, Achille, Banavar, Jayanth R.

Subject Terms: Quantitative Biology - Biomolecules, Condensed Matter - Soft Condensed Matter, Condensed Matter - Statistical Mechanics, Physics - Biological Physics

Access URL: http://arxiv.org/abs/2101.11724

Building blocks of protein structures -- Physics meets Biology

Authors: Škrbić, Tatjana, Maritan, Amos, Giacometti, Achille, Rose, George D., Banavar, Jayanth R.

Source: Phys. Rev. E 104, 014402 (2021)

Subject Terms: Quantitative Biology - Biomolecules, Condensed Matter - Soft Condensed Matter, Condensed Matter - Statistical Mechanics, Physics - Biological Physics

Access URL: http://arxiv.org/abs/2011.05514

Can the roles of polar and non-polar moieties be reversed in non-polar solvents?

Authors: Dongmo, Cedrix J., Carrer, Manuel, Houvet, Marine, Skrbic, Tatjana, Graziano, Giuseppe, Giacometti, Achille

Subject Terms: Condensed Matter - Soft Condensed Matter

Access URL: http://arxiv.org/abs/2010.06332

An integrated DEM-FEM approach to study breakage in packing of glass cartridges on a conveyor belt

Authors: Boso, Daniela, Braga, Tommaso, Ravasini, Simone, Skrbic, Tatjana, Puglisi, Andrea, Pinato, Odra, Chillon, Alberto, Frare, Maria Chiara, Giacometti, Achille

Subject Terms: Condensed Matter - Soft Condensed Matter, Condensed Matter - Statistical Mechanics

Access URL: http://arxiv.org/abs/2006.02102

Chain stiffness bridges conventional polymer and bio-molecular phases}

Authors: Skrbic, Tatjana, Banavar, Jayanth R., Giacometti, Achille

Source: J.Chem. Phys. 151, 174901-1/174901-11 (2019)

Subject Terms: Condensed Matter - Soft Condensed Matter

Access URL: http://arxiv.org/abs/1910.06670

Local symmetry determines the phases of linear chains: a simple model for the self-assembly of peptide

Authors: Skrbic, Tatjana, Hoang, Trinh X., Maritan, Amos, Banavar, Jayanth, Giacometti, Achille

Source: Soft Matter, 2019,15, 5596-5613

Subject Terms: Condensed Matter - Soft Condensed Matter

Access URL: http://arxiv.org/abs/1907.08784

The elixir phase of chain molecule

Authors: Škrbić, Tatjana, Hoang, Trinh X., Maritan, Amos, Banavar, Jayanth R., Giacometti, Achille

Source: Proteins: Structure, Function, and Bioinformatics 87 176-187 (2019)

Subject Terms: Condensed Matter - Soft Condensed Matter

Access URL: http://arxiv.org/abs/1810.09932

Universal effects of solvent species on the stabilized structure of a protein

Authors: Hayashi, Tomohiko, Inoue, Masao, Petretto, Emanuele, Škrbić, Tatjana, Giacometti, Achille, Kinoshita, Masahiro

Source: J.Chem. Phys. 149, 045105-1/045105-17 (2018)

Subject Terms: Condensed Matter - Soft Condensed Matter, Quantitative Biology - Biomolecules

Access URL: http://arxiv.org/abs/1807.06317

A Tale of Two Chains: Geometries of a Chain Model and Protein Native State Structures.

Authors: Škrbić, Tatjana^1,2 (AUTHOR) achille.giacometti@unive.it, Giacometti, Achille^1,3 (AUTHOR), Hoang, Trinh X.⁴ (AUTHOR) txhoang@iop.vast.ac.vn, Maritan, Amos⁵ (AUTHOR) amos.maritan@unipd.it, Banavar, Jayanth R.² (AUTHOR)

Source: Polymers (20734360). Feb2024, Vol. 16 Issue 4, p502. 17p.

Subject Terms: *PROTEIN models, *GEOMETRIC modeling, *LOW temperatures, *BIOPOLYMERS, *HIGH temperatures, *POLYMERS

III. Geometrical framework for thinking about globular proteins: Turns in proteins.

Authors: Škrbić, Tatjana, Giacometti, Achille, Hoang, Trinh X., Maritan, Amos, Banavar, Jayanth R.

Source: Proteins; Jan2025, Vol. 93 Issue 1, p341-358, 18p