κ-helix and the helical lock and key model: a pivotal way of looking at polyproline II

T Meirson, D Bomze, G Markel, AO Samson - Bioinformatics, 2020 - academic.oup.com
Abstract Motivation Polyproline II (PPII) is a common conformation, comparable to α-helix
and β-sheet. PPII, recently termed with a more generic name—κ-helix, adopts a left-handed …

A helical lock and key model of polyproline II conformation with SH3

T Meirson, D Bomze, L Kahlon, H Gil-Henn… - …, 2020 - academic.oup.com
Motivation More than half of the human proteome contains the proline-rich motif, PxxP. This
motif has a high propensity for adopting a left-handed polyproline II (PPII) helix and can …

Host‐guest scale of left‐handed polyproline II helix formation

AL Rucker, CT Pager, MN Campbell… - Proteins: Structure …, 2003 - Wiley Online Library
Despite the clear importance of the left‐handed polyproline II (PPII) helical conformation in
many physiologically important processes as well as its potential significance in protein …

From data or dogma? The myth of the ideal helix

DJ Kuster, S Urahata, JW Ponder, GR Marshall - Biophysical Journal, 2009 - cell.com
Texas A&M Univ, College Station, TX, USA. The 136 kDa Bacillus stearothermophilus
phosphofructokinase (BsPFK) is a homotetramer that is allosterically inhibited by phospho …

Architectonic Principles of Polyproline II Helix Bundle Protein Domains

C Segura Rodríguez, DV Laurents - bioRxiv, 2023 - biorxiv.org
Glycine rich polyproline II helix assemblies are an emerging class of natural domains found
in several proteins with different functions and diverse origins. The distinct properties of …

Insight into a molecular interaction force supporting peptide backbones and its implication to protein loops and folding

QS Du, D Chen, NZ Xie, RB Huang… - Journal of Biomolecular …, 2015 - Taylor & Francis
Although not being classified as the most fundamental protein structural elements like α-
helices and β-strands, the loop segment may play considerable roles for protein stability …

Understanding a protein fold: The physics, chemistry, and biology of α-helical coiled coils

DN Woolfson - Journal of Biological Chemistry, 2023 - ASBMB
Protein science is being transformed by powerful computational methods for structure
prediction and design: AlphaFold2 can predict many natural protein structures from …

Conformational flexibility of PPII-helix: A density functional theory study

P Guo, X Lei, Y Gao - Chemical Physics Letters, 2016 - Elsevier
Poly-proline fragments form the distinctive PPII-helix in a high percentage in proteins and
peptides, which plays an important role in signal transduction and protein complex …

PiPred–a deep-learning method for prediction of π-helices in protein sequences

J Ludwiczak, A Winski, AM da Silva Neto… - Scientific reports, 2019 - nature.com
Canonical π-helices are short, relatively unstable secondary structure elements found in
proteins. They comprise seven or more residues and are present in 15% of all known protein …

A geometric parameterization for beta turns

NE Newell - bioRxiv, 2024 - biorxiv.org
Beta turns, in which the protein backbone abruptly changes direction over four amino acid
residues, are the most common type of protein secondary structure after helices and strands …