International Journal of Biological Macromolecules,
Journal Year:
2025,
Volume and Issue:
unknown, P. 141677 - 141677
Published: March 1, 2025
Transactive
response
(TAR)
DNA-binding
protein
43
(TDP-43)
is
a
critical
RNA/DNA-binding
involved
in
various
cellular
processes,
including
RNA
splicing,
transcription
regulation,
and
stability.
Mislocalization
aggregation
of
TDP-43
the
cytoplasm
are
key
features
pathogenesis
several
neurodegenerative
diseases,
amyotrophic
lateral
sclerosis
(ALS),
frontotemporal
dementia
(FTD),
Alzheimer's
disease
(AD).
This
review
provides
comprehensive
retrospective
prospective
analysis
research,
highlighting
structural
insights,
significant
milestones,
evolving
understanding
its
physiological
pathological
functions.
We
delineate
five
major
stages
from
initial
discovery
as
hallmark
neurodegeneration
to
recent
advances
liquid-liquid
phase
separation
(LLPS)
behavior
interactions
with
processes.
Furthermore,
we
assess
therapeutic
strategies
targeting
pathology,
categorizing
approaches
into
direct
indirect
interventions,
alongside
modulating
aberrant
LLPS.
propose
that
future
research
will
focus
on
three
areas:
polymorphisms
for
disease-specific
therapeutics,
exploring
dual
temporal-spatial
modulation
TDP-43,
advancing
nano-therapy.
More
importantly,
emphasize
importance
TDP-43's
functional
repertoire
at
mesoscale,
which
bridges
molecular
functions
broader
offers
foundational
framework
development.
The EMBO Journal,
Journal Year:
2022,
Volume and Issue:
41(8)
Published: Feb. 3, 2022
Post-translational
modifications
(PTMs)
have
emerged
as
key
modulators
of
protein
phase
separation
and
been
linked
to
aggregation
in
neurodegenerative
disorders.
The
major
aggregating
amyotrophic
lateral
sclerosis
frontotemporal
dementia,
the
RNA-binding
TAR
DNA-binding
(TDP-43),
is
hyperphosphorylated
disease
on
several
C-terminal
serine
residues,
a
process
generally
believed
promote
TDP-43
aggregation.
Here,
we
however
find
that
Casein
kinase
1δ-mediated
hyperphosphorylation
or
phosphomimetic
mutations
reduce
aggregation,
instead
render
condensates
more
liquid-like
dynamic.
Multi-scale
molecular
dynamics
simulations
reveal
reduced
homotypic
interactions
low-complexity
domains
through
enhanced
solvation
residues.
Cellular
experiments
show
substitutions
do
not
affect
nuclear
import
RNA
regulatory
functions
TDP-43,
but
suppress
accumulation
membrane-less
organelles
its
solubility
neurons.
We
speculate
may
be
protective
cellular
response
counteract
Proceedings of the National Academy of Sciences,
Journal Year:
2023,
Volume and Issue:
120(2)
Published: Jan. 3, 2023
Biomolecular
condensates
formed
via
phase
separation
of
proteins
and
nucleic
acids
are
thought
to
perform
a
wide
range
critical
cellular
functions
by
maintaining
spatiotemporal
regulation
organizing
intracellular
biochemistry.
However,
aberrant
transitions
implicated
in
multitude
human
diseases.
Here,
we
demonstrate
that
two
neuronal
proteins,
namely
tau
prion,
undergo
complex
coacervation
driven
domain-specific
electrostatic
interactions
yield
highly
dynamic,
mesoscopic
liquid-like
droplets.
The
acidic
N-terminal
segment
interacts
electrostatically
with
the
polybasic
intrinsically
disordered
prion
protein
(PrP).
We
employed
unique
combination
time-resolved
tools
encompass
several
orders
magnitude
timescales
ranging
from
nanoseconds
seconds.
These
studies
unveil
an
intriguing
symphony
molecular
events
associated
formation
heterotypic
comprising
ephemeral,
domain-specific,
short-range
nanoclusters.
Our
results
reveal
these
can
be
tuned
RNA
stoichiometry-dependent
manner
resulting
reversible,
multiphasic,
immiscible,
ternary
different
morphologies
core-shell
nested
This
system
exhibits
typical
three-regime
behavior
reminiscent
other
membraneless
organelles
including
nucleolar
condensates.
also
show
upon
aging,
tau:PrP
droplets
gradually
convert
into
solid-like
co-assemblies
sequestration
persistent
intermolecular
interactions.
vibrational
Raman
conjunction
atomic
force
microscopy
multi-color
fluorescence
imaging
presence
amorphous
amyloid-like
co-aggregates
maturation.
findings
provide
mechanistic
underpinnings
overlapping
neuropathology
involving
PrP
highlight
broader
biological
role
physiology
disease.
Science Advances,
Journal Year:
2024,
Volume and Issue:
10(1)
Published: Jan. 5, 2024
Phase-separated
biomolecular
condensates
exhibit
a
wide
range
of
dynamic
properties,
which
depend
on
the
sequences
constituent
proteins
and
RNAs.
However,
it
is
unclear
to
what
extent
condensate
dynamics
can
be
tuned
without
also
changing
thermodynamic
properties
that
govern
phase
separation.
Using
coarse-grained
simulations
intrinsically
disordered
proteins,
we
show
thermodynamics
homopolymer
are
strongly
correlated,
with
increased
stability
being
coincident
low
mobilities
high
viscosities.
We
then
apply
an
“active
learning”
strategy
identify
heteropolymer
break
this
correlation.
This
data-driven
approach
accompanying
analysis
reveal
how
heterogeneous
amino
acid
compositions
nonuniform
sequence
patterning
map
independently
tunable
condensates.
Our
results
highlight
key
molecular
determinants
governing
physical
establish
design
rules
for
development
stimuli-responsive
biomaterials.
Cell Communication and Signaling,
Journal Year:
2024,
Volume and Issue:
22(1)
Published: Feb. 12, 2024
Abstract
The
phenomenon
of
phase
separation
is
quite
common
in
cells,
and
it
involved
multiple
processes
life
activities.
However,
the
current
research
on
correlation
between
protein
modifications
interference
with
tendency
has
some
limitations.
Here
we
focus
several
post-translational
proteins,
including
phosphorylation
modification
at
sites,
methylation
modification,
acetylation
ubiquitination
SUMOylation
etc.,
which
regulate
formation
stability
structure
through
multivalent
interactions.
This
regulatory
role
closely
related
to
development
neurodegenerative
diseases,
tumors,
viral
infections,
other
also
plays
essential
functions
environmental
stress,
DNA
damage
repair,
transcriptional
regulation,
signal
transduction,
cell
homeostasis
living
organisms,
provides
an
idea
explore
interaction
novel
separation.
Cell Reports,
Journal Year:
2025,
Volume and Issue:
44(1), P. 115205 - 115205
Published: Jan. 1, 2025
Amyotrophic
lateral
sclerosis
(ALS)
is
a
devastating
neurodegenerative
disorder
typically
characterized
by
insoluble
inclusions
of
hyperphosphorylated
TDP-43.
The
mechanisms
underlying
toxic
TDP-43
accumulation
are
not
understood.
Persistent
activation
p38
mitogen-activated
protein
kinase
(MAPK)
implicated
in
ALS.
However,
it
unclear
how
MAPK
affects
proteinopathy.
Here,
we
show
that
p38α
inhibition
reduces
pathological
phosphorylation,
aggregation,
cytoplasmic
mislocalization,
and
neurotoxicity.
Remarkably,
mitigates
aberrant
phenotypes
diverse
ALS
patient-derived
motor
neurons.
phosphorylates
at
S409/S410
S292,
which
liquid-liquid
phase
separation
(LLPS)
but
allows
aggregation.
Moreover,
establish
PRMT1
methylates
R293.
Importantly,
S292
phosphorylation
R293
methylation,
methylation
phosphorylation.
Notably,
permits
LLPS
Thus,
strategies
to
reduce
p38α-mediated
promote
PRMT1-mediated
could
have
therapeutic
utility
for
related
proteinopathies.
JACS Au,
Journal Year:
2022,
Volume and Issue:
2(3), P. 673 - 686
Published: March 1, 2022
The
paradigmatic
disordered
protein
tau
plays
an
important
role
in
neuronal
function
and
neurodegenerative
diseases.
To
disentangle
the
factors
controlling
balance
between
functional
disease-associated
conformational
states,
we
build
a
structural
ensemble
of
K18
fragment
containing
four
pseudorepeat
domains
involved
both
microtubule
binding
amyloid
fibril
formation.
We
assemble
129-residue-long
chains
with
atomic
detail
from
extensive
library
constructed
molecular
dynamics
simulations.
introduce
reweighted
hierarchical
chain
growth
(RHCG)
algorithm
that
integrates
experimental
data
reporting
on
local
structure
into
assembly
process
systematic
manner.
By
combining
Bayesian
refinement
importance
sampling,
obtain
well-defined
ensembles
overcome
problem
exponentially
varying
weights
integrative
modeling
long-chain
polymeric
molecules.
resulting
capture
nuclear
magnetic
resonance
(NMR)
chemical
shift
J-coupling
measurements.
Without
further
fitting,
achieve
very
good
agreement
measurements
NMR
residual
dipolar
couplings.
measures
global
such
as
single-molecule
Förster
energy
transfer
(FRET)
efficiencies
is
improved
by
refinement.
comparing
wild-type
mutant
ensembles,
show
pathogenic
single-point
P301L,
P301S,
P301T
mutations
population
turn-like
conformations
microtubule-bound
state
to
extended
fibrils.
RHCG
thus
provides
us
atomically
detailed
view
equilibrium
aggregation-prone
states
K18,
demonstrates
characteristics
this
intrinsically
emerge
its
structure.
Cell Reports,
Journal Year:
2022,
Volume and Issue:
39(13), P. 111007 - 111007
Published: June 1, 2022
Cytoplasmic
mislocalization
of
the
TAR-DNA
binding
protein
43
kDa
(TDP-43)
leads
to
large,
insoluble
aggregates
that
are
a
hallmark
amyotrophic
lateral
sclerosis
and
frontotemporal
dementia.
Here,
we
study
how
importin
α1/β
recognizes
TDP-43
bipartite
nuclear
localization
signal
(NLS).
We
find
NLS
makes
extensive
contacts
with
α1,
especially
at
minor
NLS-binding
site.
results
in
steric
clashes
C
terminus
α1
disrupts
N-terminal
domain
(NTD)
dimerization
interface.
A
putative
phosphorylation
site
proximity
R83
destabilizes
importins
by
reducing
backbone
dynamics.
Based
on
these
data,
explain
pathogenic
role
several
post-translational
modifications
mutations
linked
disease
shed
light
chaperone
activity
α1/β.