Salt-Dependent Self-Association of Trinucleotide Repeat RNA Sequences
The Journal of Physical Chemistry Letters,
Год журнала:
2024,
Номер
15(14), С. 3820 - 3827
Опубликована: Апрель 1, 2024
Repeat
RNA
sequences
self-associate
to
form
condensates.
Simulations
of
a
coarse-grained
single-interaction
site
model
for
(CAG)n
(n
=
30
and
31)
show
that
the
salt-dependent
free
energy
gap,
ΔGS,
between
ground
(perfect
hairpin)
excited
state
(slipped
hairpin
(SH)
with
one
CAG
overhang)
monomer
even)
is
primary
factor
determines
rates
yield
self-assembly.
For
odd
n,
(GS)
state,
which
an
SH,
used
predict
self-association
kinetics.
As
monovalent
salt
concentration,
CS,
increases,
ΔGS
GS
increase,
decreases
dimer
formation.
In
contrast,
shuffled
sequences,
same
length
sequence
composition
as
(CAG)31,
larger,
suppresses
their
propensities
aggregate.
Although
demonstrated
explicitly
(CAG)
polymers,
finding
inverse
correlation
gap
aggregation
general.
Язык: Английский
Salt-dependent self-association of trinucleotide repeat RNA sequences
bioRxiv (Cold Spring Harbor Laboratory),
Год журнала:
2023,
Номер
unknown
Опубликована: Ноя. 27, 2023
Abstract
Low
complexity
repeat
RNA
sequences
self-associate
by
homotypic
interactions
to
form
condensates.
Using
simulations
of
a
coarse
grained
Single-Interaction
Site
model
for
(CAG)
n
(
=
30
and
31),
we
show
that
the
salt-dependent
free
energy
gap,
∆
G
S
,
between
ground
(perfect
hairpin)
excited
state
(slipped
hairpin
(SH)
with
one
CAG
overhang)
monomer
even)
is
primary
factor
determines
rates
yield
self-assembly.
For
odd
SH
)
used
predict
self-association
kinetics.
As
monovalent
salt
concentration,
C
increases
increases,
which
in
turn
decreases
rates.
In
contrast,
scrambled
sequences,
same
length
sequence
composition
as
31
but
higher
complexity,
larger
greatly
suppresses
propensities
aggregate.
Although
demonstrated
explicitly
polymers,
finding
there
an
inverse
correlation
-dependent
or
aggregation
general.
Our
predictions
are
amenable
experimental
tests.
Язык: Английский