Amino acid characteristics in protein native state structures
Fuente:
arXiv
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| Autori principali: | , , , , |
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| Natura: | Preprint |
| Pubblicazione: |
2023
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| _version_ | 1866913210771177472 |
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| author | Škrbić, Tatjana Giacometti, Achille Hoang, Trinh X. Maritan, Amos Banavar, Jayanth R. |
| author_facet | Škrbić, Tatjana Giacometti, Achille Hoang, Trinh X. Maritan, Amos Banavar, Jayanth R. |
| contents | We present a geometrical analysis of the protrusion statistics of side chains in more than 4,000 high-resolution protein structures. We employ a coarse-grained representation of the protein backbone viewed as a linear chain of Cα atoms and consider just the heavy atoms of the side chains. We study the large variety of behaviors of the amino acids based on both rudimentary structural chemistry as well as geometry. Our geometrical analysis uses a backbone Frenet coordinate system for the common study of all amino acids. Our analysis underscores the richness of the repertoire of amino acids that is available to nature to design protein sequences that fit within the putative native state folds. |
| format | Preprint |
| id |
arxiv_https___arxiv_org_abs_2312_07304 |
| institution | arXiv |
| publishDate | 2023 |
| record_format | arxiv |
| spellingShingle | Amino acid characteristics in protein native state structures Škrbić, Tatjana Giacometti, Achille Hoang, Trinh X. Maritan, Amos Banavar, Jayanth R. Soft Condensed Matter Biomolecules We present a geometrical analysis of the protrusion statistics of side chains in more than 4,000 high-resolution protein structures. We employ a coarse-grained representation of the protein backbone viewed as a linear chain of Cα atoms and consider just the heavy atoms of the side chains. We study the large variety of behaviors of the amino acids based on both rudimentary structural chemistry as well as geometry. Our geometrical analysis uses a backbone Frenet coordinate system for the common study of all amino acids. Our analysis underscores the richness of the repertoire of amino acids that is available to nature to design protein sequences that fit within the putative native state folds. |
| title | Amino acid characteristics in protein native state structures |
| topic | Soft Condensed Matter Biomolecules |
| url | https://arxiv.org/abs/2312.07304 |