bioRxiv (Cold Spring Harbor Laboratory),
Год журнала:
2024,
Номер
unknown
Опубликована: Окт. 24, 2024
ABSTRACT
Disordered
proteins
and
domains
often
assemble
into
condensates
with
polyanionic
nucleic
acids,
primarily
via
charge
complementarity,
regulating
numerous
cellular
functions.
However,
the
assembly
mechanisms
associated
other
abundant
ubiquitous,
anionic,
stress-response
polymer,
polyphosphate
(polyP),
is
less
understood.
Here,
we
employ
intrinsically
disordered
DNA
binding
domain
(DBD)
of
cytidine
repressor
(CytR)
from
E.coli
to
study
nature
processes
their
maturation
polyP
DNA.
Wild-type
CytR
forms
metastable
liquid-like
DNA,
while
undergoing
liquid-to-solid
transition
in
former
solubilizing
latter.
On
mutationally
engineering
ensemble
exhibit
more
or
structure
dimensions
than
WT,
process
directed
either
partial
time-dependent
solubilization
spontaneous
aggregation,
respectively.
The
timescales
structural
changes
formed
by
folded
mutant
span
tens
minutes,
indicative
slow
dynamics
highlights
tussle
between
folding
driven
intra-molecular
interactions
mediated
inter-molecular
interactions.
hand,
variants
form
only
but
droplets
which
solubilize
within
a
few
hours.
Polyphosphate
induces
large
secondary-structure
two
mutants
adopting
polyproline
II-like
structures
droplets,
has
minimal
effects.
Our
findings
reveal
how
able
efficiently
discern
conformational
heterogeneity
starting
protein
ensemble,
its
structure,
compactness,
broad
implications
involving
stress
response
bacterial
systems.
Advanced Biology,
Год журнала:
2025,
Номер
unknown
Опубликована: Фев. 12, 2025
The
discovery
of
coacervation
within
living
cells
through
liquid-liquid
phase
separation
has
inspired
scientists
to
investigate
its
fundamental
principles
and
significance.
Indeed,
coacervates
composed
low-molecular-weight
compounds
based
on
supramolecular
strategy
can
offer
valuable
models
for
biomolecular
condensates
useful
tools.
This
mini-review
highlights
recent
findings
advances
in
(artificial
condensates),
primarily
compounds,
with
focuses
their
molecular
design,
stimuli
responsiveness,
controlled
reactions
or
leading
the
coacervates.
Advanced Materials,
Год журнала:
2025,
Номер
unknown
Опубликована: Фев. 9, 2025
Protein
phase
transitions
play
a
vital
role
in
both
cellular
functions
and
pathogenesis.
Dispersed
proteins
can
undergo
liquid-liquid
separation
to
form
condensates,
process
that
is
reversible
highly
regulated
within
cells.
The
formation
physicochemical
properties
of
these
such
as
composition,
viscosity,
multiphase
miscibility,
are
precisely
modulated
fulfill
specific
biological
functions.
However,
protein
condensates
further
liquid-to-solid
state,
forming
β-sheet-rich
aggregates
may
disrupt
function
lead
diseases.
While
this
phenomenon
crucial
for
processes
has
significant
implications
neurodegenerative
diseases,
the
behavior
naturally
derived
or
engineered
polypeptides
also
presents
opportunities
developing
high-performance,
multifunctional
materials
at
various
scales.
Additionally,
unique
molecular
recruitment
capabilities
inspire
innovative
advancements
biomaterial
design
applications
drug
discovery,
delivery,
biosynthesis.
This
work
highlights
recent
progress
understanding
mechanisms
underlying
behavior,
particularly
how
it
responds
internal
changes
external
physical
stimuli.
Furthermore,
fabrication
from
diverse
sources
through
controlled
demonstrated.
Alzheimer s & Dementia,
Год журнала:
2025,
Номер
21(2)
Опубликована: Фев. 1, 2025
Abstract
The
characteristic
events
in
neurodegenerative
diseases
(NDDs)
encompass
protein
misfolding,
aggregation,
accumulation,
and
their
related
cellular
dysfunction,
synaptic
function
loss.
While
distinct
proteins
are
implicated
the
pathological
processes
of
different
NDDs,
process
misfolding
aggregation
remains
notably
similar
across
various
conditions.
Specifically,
undergo
into
beta‐folded
(β‐folded)
conformation,
resulting
formation
insoluble
amyloid
proteins.
Despite
advancements
comprehending
certain
facets
this
intricate
remain
incompletely
elucidated.
In
recent
years,
concept
that
long
non‐coding
RNAs
(lncRNAs)
contribute
to
has
gained
recognition.
LncRNAs
influence
aggregates
by
facilitating
overexpression
through
regulation
gene
transcription
translation,
inhibiting
degradation
via
lysosomal
autophagic
pathways,
targeting
aberrant
modifications
phase
transitions
A
better
understanding
relationship
between
lncRNAs
is
an
important
step
dissecting
underlying
molecular
mechanisms
will
discovery
new
therapeutic
targets
strategies.
Highlights
NDDs
marked
leading
dysfunction
loss
function.
being
involved
β‐folded
conformations
forming
consistent
role
attention,
as
they
regulate
inhibit
degradation,
target
modifications.
Understanding
link
crucial
for
uncovering
developing
targets.
Abstract
Noncovalent
interactions
are
the
basis
for
a
large
number
of
chemical
and
biological
molecular‐recognition
processes,
such
as
those
occurring
in
supramolecular
chemistry,
catalysis,
solid‐state
reactions
mechanochemistry,
protein
folding,
protein‐nucleic
acid
binding,
biomolecular
phase
separation
processes.
In
this
perspective
article,
some
recent
developments
probing
noncovalent
by
proton‐detected
Nuclear
Magnetic
Resonance
(NMR)
spectroscopy
at
Magic‐Angle
Spinning
(MAS)
frequencies
100
kHz
more
reviewed.
The
development
MAS
rotors
with
decreasing
outer
diameters,
combined
superconducting
magnets
operating
high
static
magnetic‐field
strengths
up
to
28.2
T
(1200
MHz
proton
Larmor
frequency)
improves
resolution
sensitivity
NMR,
which
is
fundamental
requirement
shedding
light
on
solids.
examples
reported
article
range
from
binding
ATP‐fueled
motor
proteins
hydrogen‐π
interaction
calixarene‐lanthanide
complex.
Communications Chemistry,
Год журнала:
2024,
Номер
7(1)
Опубликована: Ноя. 12, 2024
Liquid-liquid
phase
separation
(LLPS)
of
proteins
can
be
considered
an
intermediate
solubility
regime
between
disperse
solutions
and
solid
fibers.
While
LLPS
has
been
described
for
several
pathogenic
amyloids,
recent
evidence
suggests
that
it
is
similarly
relevant
functional
amyloids.
Here,
we
review
the
links
spider
silk
(spidroins)
its
role
in
spinning
process.
Major
ampullate
spidroins
undergo
mediated
by
stickers
spacers
their
repeat
regions.
During
spinning,
droplets
shift
from
liquid
to
crystalline
states.
Shear
force,
altered
ion
composition,
pH
changes
cause
micelle-like
spidroin
assemblies
form
increasingly
ordered
liquid-crystalline
phase.
Interactions
polyalanine
regions
ultimately
yield
characteristic
β-crystalline
structure
mature
dragline
Based
on
these
findings,
hypothesize
liquid-liquid
(LLCPS)
describe
molecular
macroscopic
features
transitions
major
during
speculate
whether
other
types
may
use
a
similar
mechanism
convert
dope
fiber.
Biochemistry,
Год журнала:
2025,
Номер
64(2), С. 377 - 400
Опубликована: Янв. 6, 2025
Aggregation
of
α-synuclein
(α-Syn)
and
Lewy
body
(LB)
formation
are
the
key
pathological
events
implicated
in
Parkinson's
disease
(PD)
that
spread
a
prion-like
manner.
However,
biophysical
structural
characteristics
toxic
α-Syn
species
molecular
drive
early
propagation
amyloids
manner
remain
elusive.
We
used
neuronal
cell
model
to
demonstrate
size-dependent
native
biological
activities
fibril
seeds.
Biophysical
characterization
seeds
generated
by
controlled
fragmentation
indicated
increased
leads
reduction
size,
correlating
directly
with
extent
events.
Although
size-based
complexity
amyloid
fibrils
modulates
their
amplification
pathways,
it
remains
unclear
how
variability
seed
size
dictates
its
specific
uptake
mechanism
into
cells.
The
present
study
elucidates
internalization
is
regulated
Further,
we
endocytic
pathways
(dynamin-dependent
clathrin/caveolin-mediated)
more
prominent
for
differential
short
compared
longer
counterparts.
This
preference
might
contribute
enhanced
transcellular
Overall,
suggests
physical
dimension
significantly
influences
cellular
responses
initiation
progression
PD.
Liquid-to-solid-like
phase
transition
(LSPT)
of
disordered
proteins
via
metastable
liquid-like
droplets
is
a
well-documented
phenomenon
in
biology
and
linked
to
many
pathological
conditions
including
neurodegenerative
diseases.
However,
very
less
known
about
the
early
microscopic
events
transient
intermediates
involved
irreversible
protein
aggregation
functional
globular
proteins.
Herein,
using
range
spectroscopic
techniques,
we
show
that
LSPT
protein,
human
serum
albumin
(HSA),
exclusively
driven
by
spontaneous
coalescence
involving
various
temporal
manner.
We
interdroplet
communication
essential
for
both
initial
growth
amorphous
aggregates
within
individual
droplets,
which
subsequently
transform
amyloid-like
fibrils.
Immobilized
neither
any
nucleation
nor
upon
aging.
Moreover,
found
exchange
materials
with
dilute
dispersed
has
negligible
influence
on
HSA.
Our
findings
reveal
interfacial
properties
effectively
modulate
feasibility
kinetics
HSA
ligand
binding,
suggesting
possible
regulatory
mechanism
cells
utilize
control
dynamics
LSPT.
Furthermore,
dynamic
heterogeneous
droplet
assembly
two
proteins,
transferrin
(Tf),
an
intriguing
fused
where
solid-like
phases
coexist
same
droplet,
eventually
mixed
fibrillar
assembly.
These
insights
not
only
highlight
importance
interactions
behind
biomolecules
but
also
showcase
its
adverse
effect
structure
function
other
crowded
ACS Applied Materials & Interfaces,
Год журнала:
2025,
Номер
unknown
Опубликована: Апрель 21, 2025
The
solution
to
societal
problems
such
as
energy,
environmental,
and
biomedical
issues
lies
in
the
development
of
functional
material
systems
with
capacity
address
these
problems.
In
course
human
development,
we
are
entering
a
new
era
which
nanostructure
control
is
considered
major
materials.
concept
nanoarchitectonics
particularly
significant
this
regard,
it
comprehensively
promotes
further
nanotechnology
its
fusion
materials
chemistry.
integration
nanoscale
phenomena
macroscopic
actions
imperative
for
practical
production
structural
precision.
This
review
focuses
on
dynamic
flow-assisted
nanoarchitectonics,
wherein
explore
organization
structures
by
external
mechanical
stimuli,
predominantly
fluid
flow.
then
proceeds
select
some
examples
divide
them
into
categories
purpose
discussion:
(i)
natural
flow,
(ii)
flow
or
stress
created
artificial
equipment
devices
(forced
flow),
(iii)
at
specific
field,
namely
interfaces,
that
is,
layer-by-layer
(LbL)
assembly
LB
method.
final
perspective
section
discusses
future
research
directions
requirements
nanoarchitectonics.
meaningful
effective
use
science
set
be
area
focus
future,
poised
play
role
achieving
objective.
Frontiers in Immunology,
Год журнала:
2024,
Номер
15
Опубликована: Сен. 26, 2024
Liquid-liquid
phase
separation
(LLPS)
is
integral
to
various
biological
processes,
facilitating
signal
transduction
by
creating
a
condensed,
membrane-less
environment
that
plays
crucial
roles
in
diverse
physiological
and
pathological
processes.
Recent
evidence
has
underscored
the
significance
of
LLPS
human
health
disease.
However,
its
implications
respiratory
diseases
remain
poorly
understood.
This
review
explores
current
insights
into
mechanisms
LLPS,
focusing
particularly
on
relevance
diseases,
aiming
deepen
our
understanding
propose
new
paradigm
for
studying
this
context.
The
assembly
of
peptides
is
generally
mediated
by
liquid–liquid
phase
separation,
which
enables
control
over
kinetics,
final
structure,
and
functions
peptide-based
supramolecular
materials.
Modulating
separation
can
alter
the
kinetics
changing
solvents
or
introducing
external
fields.
Herein,
we
demonstrate
that
be
effectively
catalyzed
complex
coacervates.
negatively
charged
sodium
alginate
(SA)
form
coacervates
with
positively
KLVFFAE
(Aβ16–22,
abbreviated
as
KE)
peptide,
thereby
lowering
nucleation
barrier
promoting
peptide.
As
binding
affinity
SA-KE
dosage
SA
decrease,
system
shifts
from
a
relatively
inefficient
template-induced
to
highly
efficient
catalytic
before
ultimately
reverting
slow
spontaneous
assembly.
Therefore,
both
well
stoichiometry
do
not
follow
intuitive
rule
"more
better",
but
rather
there
exists
an
optimal
value
maximizes
rate