Polyproline-II helix in proteins: structure and function

AA Adzhubei, MJE Sternberg, AA Makarov - Journal of molecular biology, 2013 - Elsevier
The poly-l-proline type II (PPII) helix in recent years has emerged clearly as a structural class
not only of fibrillar proteins (in collagen, PPII is a dominant conformation) but also of the …

Proline: the distribution, frequency, positioning, and common functional roles of proline and polyproline sequences in the human proteome

AA Morgan, E Rubenstein - PloS one, 2013 - journals.plos.org
Proline is an anomalous amino acid. Its nitrogen atom is covalently locked within a ring, thus
it is the only proteinogenic amino acid with a constrained phi angle. Sequences of three …

Membrane-associated mucins of the ocular surface: New genes, new protein functions and new biological roles in human and mouse

ME Fini, S Jeong, H Gong, R Martinez-Carrasco… - Progress in retinal and …, 2020 - Elsevier
The mucosal glycocalyx of the ocular surface constitutes the point of interaction between the
tear film and the apical epithelial cells. Membrane-associated mucins (MAMs) are the …

Force field effects in simulations of flexible peptides with varying polyproline II propensity

S Jephthah, F Pesce, K Lindorff-Larsen… - Journal of chemical …, 2021 - ACS Publications
Five peptides previously suggested to possess polyproline II (PPII) structure have here been
investigated by using atomistic molecular dynamics simulations to compare how well four …

[HTML][HTML] Extension of the classical classification of β-turns

AG de Brevern - Scientific reports, 2016 - nature.com
The functional properties of a protein primarily depend on its three-dimensional (3D)
structure. These properties have classically been assigned, visualized and analysed on the …

Position β57 of IAg7 controls early anti-insulin responses in NOD mice, linking an MHC susceptibility allele to type 1 diabetes onset

L Gioia, M Holt, A Costanzo, S Sharma, B Abe… - Science …, 2019 - science.org
The class II region of the major histocompatibility complex (MHC) locus is the main
contributor to the genetic susceptibility to type 1 diabetes (T1D). The loss of an aspartic acid …

Molecular dynamics simulations of phosphorylated intrinsically disordered proteins: a force field comparison

E Rieloff, M Skepö - International journal of molecular sciences, 2021 - mdpi.com
Phosphorylation is a common post-translational modification among intrinsically disordered
proteins and regions, which helps regulate function by changing the protein conformations …

An asymmetric dimer as the basic subunit in Alzheimer's disease amyloid β fibrils

JM Lopez del Amo, M Schmidt, U Fink… - Angewandte Chemie …, 2012 - Wiley Online Library
Aggregation of monomeric amyloid β peptides (Aβ) into soluble oligomers and insoluble
fibrils is one of the major pathological hallmarks of Alzheimer s disease (AD).[1] In the past …

Predicting the affinity of peptides to major histocompatibility complex class II by scoring molecular dynamics simulations

R Ochoa, A Laio, P Cossio - Journal of Chemical Information and …, 2019 - ACS Publications
Predicting the binding affinity of peptides able to interact with major histocompatibility
complex (MHC) molecules is a priority for researchers working in the identification of novel …

Engineering protein stability with atomic precision in a monomeric miniprotein

EG Baker, C Williams, KL Hudson, GJ Bartlett… - Nature chemical …, 2017 - nature.com
Miniproteins simplify the protein-folding problem, allowing the dissection of forces that
stabilize protein structures. Here we describe PPα-Tyr, a designed peptide comprising an α …