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Structural role of hydrophobic core in proteins-selected examples
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Structural role of hydrophobic core in proteins-selected examples
Bibliographic description
| title: | Structural role of hydrophobic core in proteins-selected examples |
| author: | Banach Mateusz  , Kalinowska B., Konieczny Leszek, Roterman-Konieczna Irena
|
| journal title: | Journal of Proteomics and Bioinformatics |
| volume: | 9 |
| issue: | 11 |
| date of publication : | 2016 |
| pages: | 276-286 |
| eISSN: |
0974-276X |
| DOI: | |
| language: | English |
| journal language: | English |
| abstract in English: | This paper discusses the sequence/structure relation. The core question concerns the degree to which similar sequences produce similar structures and vice versa. A mechanism by which similar sequences may result in dissimilar structures is proposed, based on the Fuzzy Oil Drop (FOD) model in which structural similarity is estimated by analyzing the protein’s hydrophobic core. We show that local changes in amino acid sequences, in addition to producing local structural alterations at the substitution site, may also change the shape of the hydrophobic core, significantly affecting the overall tertiary conformation of the protein. Our analysis focuses on four sets of proteins: 1) Pair of designer proteins with specially prepared sequences; 2) Pair of natural proteins modified (mutated) to converge to a point of high-level sequence identity while retaining their respective wild-type tertiary folds; 3) Pair of natural proteins with common ancestry but with differing structures and biological profiles shaped by divergent evolution; and 4) Pair of natural proteins of high structural similarity with no sequence similarity and different biological function. |
| keywords in English: | structure comparison, structure alignment, structural differences, structure prediction, evolution, protein folding, hydrophobicity |
| number of pulisher's sheets: | 1,1 |
| departmental parameterization: | 5 |
| affiliation: | Wydział Lekarski : Zakład Bioinformatyki i Telemedycyny |
| type: | journal article |
| subtype: | academic paper |
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Except where otherwise noted, this item's license is described as Udzielam licencji. Uznanie autorstwa
Projekt „Repozytorium otwartego dostępu do dorobku naukowego i dydaktycznego UJ” współfinansowany w ramach poddziałania 2.3.1 „Cyfrowe udostępnianie zasobów nauki” Programu Operacyjnego Polska Cyfrowa z Europejskiego Funduszu Rozwoju Regionalnego i budżetu państwa na podstawie umowy o dofinansowanie nr POPC.02.03.01-00-0030/17-00
