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A novel secondary structure based on fused five-membered rings motif

An analysis of protein structures indicates the existence of a novel, fused five-membered rings motif, comprising of two residues (i and i + 1), stabilized by interresidue N(i+1)–H∙∙∙N(i) and intraresidue N(i+1)–H∙∙∙O=C(i+1) hydrogen bonds. Fused-rings geometry is the common thread running through m...

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Autores principales: Dhar, Jesmita, Kishore, Raghuvansh, Chakrabarti, Pinak
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group 2016
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4980606/
https://www.ncbi.nlm.nih.gov/pubmed/27511362
http://dx.doi.org/10.1038/srep31483
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author Dhar, Jesmita
Kishore, Raghuvansh
Chakrabarti, Pinak
author_facet Dhar, Jesmita
Kishore, Raghuvansh
Chakrabarti, Pinak
author_sort Dhar, Jesmita
collection PubMed
description An analysis of protein structures indicates the existence of a novel, fused five-membered rings motif, comprising of two residues (i and i + 1), stabilized by interresidue N(i+1)–H∙∙∙N(i) and intraresidue N(i+1)–H∙∙∙O=C(i+1) hydrogen bonds. Fused-rings geometry is the common thread running through many commonly occurring motifs, such as β-turn, β-bulge, Asx-turn, Ser/Thr-turn, Schellman motif, and points to its structural robustness. A location close to the beginning of a β-strand is rather common for the motif. Devoid of side chain, Gly seems to be a key player in this motif, occurring at i, for which the backbone torsion angles cluster at ~(−90°, −10°) and (70°, 20°). The fused-rings structures, distant from each other in sequence, can hydrogen bond with each other, and the two segments aligned to each other in a parallel fashion, give rise to a novel secondary structure, topi, which is quite common in proteins, distinct from two major secondary structures, α-helix and β-sheet. Majority of the peptide segments making topi are identified as aggregation-prone and the residues tend to be conserved among homologous proteins.
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spelling pubmed-49806062016-08-19 A novel secondary structure based on fused five-membered rings motif Dhar, Jesmita Kishore, Raghuvansh Chakrabarti, Pinak Sci Rep Article An analysis of protein structures indicates the existence of a novel, fused five-membered rings motif, comprising of two residues (i and i + 1), stabilized by interresidue N(i+1)–H∙∙∙N(i) and intraresidue N(i+1)–H∙∙∙O=C(i+1) hydrogen bonds. Fused-rings geometry is the common thread running through many commonly occurring motifs, such as β-turn, β-bulge, Asx-turn, Ser/Thr-turn, Schellman motif, and points to its structural robustness. A location close to the beginning of a β-strand is rather common for the motif. Devoid of side chain, Gly seems to be a key player in this motif, occurring at i, for which the backbone torsion angles cluster at ~(−90°, −10°) and (70°, 20°). The fused-rings structures, distant from each other in sequence, can hydrogen bond with each other, and the two segments aligned to each other in a parallel fashion, give rise to a novel secondary structure, topi, which is quite common in proteins, distinct from two major secondary structures, α-helix and β-sheet. Majority of the peptide segments making topi are identified as aggregation-prone and the residues tend to be conserved among homologous proteins. Nature Publishing Group 2016-08-11 /pmc/articles/PMC4980606/ /pubmed/27511362 http://dx.doi.org/10.1038/srep31483 Text en Copyright © 2016, The Author(s) http://creativecommons.org/licenses/by/4.0/ This work is licensed under a Creative Commons Attribution 4.0 International License. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in the credit line; if the material is not included under the Creative Commons license, users will need to obtain permission from the license holder to reproduce the material. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/
spellingShingle Article
Dhar, Jesmita
Kishore, Raghuvansh
Chakrabarti, Pinak
A novel secondary structure based on fused five-membered rings motif
title A novel secondary structure based on fused five-membered rings motif
title_full A novel secondary structure based on fused five-membered rings motif
title_fullStr A novel secondary structure based on fused five-membered rings motif
title_full_unstemmed A novel secondary structure based on fused five-membered rings motif
title_short A novel secondary structure based on fused five-membered rings motif
title_sort novel secondary structure based on fused five-membered rings motif
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4980606/
https://www.ncbi.nlm.nih.gov/pubmed/27511362
http://dx.doi.org/10.1038/srep31483
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