Distinguishing features of fold‐switching proteins

D Chakravarty, JW Schafer, LL Porter - Protein Science, 2023 - Wiley Online Library
Though many folded proteins assume one stable structure that performs one function, a
small‐but‐increasing number remodel their secondary and tertiary structures and change …

Fluid protein fold space and its implications

LL Porter - Bioessays, 2023 - Wiley Online Library
Fold‐switching proteins, which remodel their secondary and tertiary structures in response
to cellular stimuli, suggest a new view of protein fold space. For decades, experimental …

SSDraw: software for generating comparative protein secondary structure diagrams

EA Chen, LL Porter - Protein Science, 2023 - Wiley Online Library
The program SSDraw generates publication‐quality protein secondary structure diagrams
from three‐dimensional protein structures. To depict relationships between secondary …

The ancient Z-DNA and Z-RNA specific Zα fold has evolved modern roles in immunity and transcription through the natural selection of Flipons

A Herbert - Royal Society Open Science, 2024 - royalsocietypublishing.org
The Zα fold specifically binds to both Z-DNA and Z-RNA, left-handed nucleic acid structures
that form under physiological conditions and are encoded by flipons. I trace the Zα fold back …

Evolutionary selection of proteins with two folds

JW Schafer, LL Porter - Biophysical Journal, 2023 - cell.com
Although most globular proteins fold into a single stable structure, an increasing number
have been shown to remodel their secondary and tertiary structures in response to cellular …

The intrinsically disordered transcriptional activation domain of CIITA is functionally tuneable by single substitutions: An exception or a new paradigm?

S Sreenivasan, P Heffren, KS Suh, MV Rodnin… - Protein …, 2024 - Wiley Online Library
During protein evolution, some amino acid substitutions modulate protein function
(“tuneability”). In most proteins, the tuneable range is wide and can be sampled by a set of …

An ancestral fold reveals the evolutionary link between RNA polymerase and ribosomal proteins

S Yagi, S Tagami - Nature communications, 2024 - nature.com
Numerous molecular machines are required to drive the central dogma of molecular biology.
However, the means by which these numerous proteins emerged in the early evolutionary …

Metamorphic protein folding as evolutionary adaptation

AF Dishman, BF Volkman - Trends in Biochemical Sciences, 2023 - cell.com
Metamorphic proteins switch reversibly between multiple distinct, stable structures, often
with different functions. It was previously hypothesized that metamorphic proteins arose as …

Can Protein Structure Prediction Methods Capture Alternative Conformations of Membrane Transporters?

T Xie, J Huang - Journal of Chemical Information and Modeling, 2024 - ACS Publications
Understanding the conformational dynamics of proteins, such as the inward-facing (IF) and
outward-facing (OF) transition observed in transporters, is vital for elucidating their functional …

[HTML][HTML] Proteomic evidence for amyloidogenic cross-seeding in fibrinaloid microclots

DB Kell, E Pretorius - International Journal of Molecular …, 2024 - pmc.ncbi.nlm.nih.gov
In classical amyloidoses, amyloid fibres form through the nucleation and accretion of protein
monomers, with protofibrils and fibrils exhibiting a cross-β motif of parallel or antiparallel β …