CageCavityCalc (C3): A Computational Tool for Calculating and Visualizing Cavities in Molecular Cages
Journal of Chemical Information and Modeling,
Journal Year:
2024,
Volume and Issue:
64(14), P. 5604 - 5616
Published: July 9, 2024
Organic(porous)
and
metal–organic
cages
are
promising
biomimetic
platforms
with
diverse
applications
spanning
recognition,
sensing,
catalysis.
The
key
to
the
emergence
of
these
functions
is
presence
well-defined
inner
cavities
capable
binding
a
wide
range
guest
molecules
modulating
their
properties.
However,
despite
myriad
cage
architectures
currently
available,
rational
design
structurally
functional
specific
host–guest
properties
remains
challenging.
Efficiently
predicting
such
critical
for
accelerating
discovery
novel
cages.
Herein,
we
introduce
CageCavityCalc
(C3),
Python-based
tool
calculating
cavity
size
molecular
code
available
on
GitHub
at
https://github.com/VicenteMartiCentelles/CageCavityCalc.
C3
utilizes
algorithm
that
enables
rapid
calculation
sizes
structures
porous
systems.
Moreover,
facilitates
easy
visualization
computed
alongside
hydrophobic
electrostatic
potentials,
providing
insights
into
interactions
within
cage.
Furthermore,
calculated
can
be
visualized
using
widely
software,
as
PyMol,
VMD,
or
ChimeraX.
To
enhance
user
accessibility,
PyMol
plugin
has
been
created,
allowing
nonspecialists
use
this
without
requiring
computer
programming
expertise.
We
anticipate
deployment
computational
will
significantly
streamline
calculations,
thereby
Language: Английский
Functional Post-Synthetic Chemistry of Metal–Organic Cages According to Molecular Architecture and Specific Geometry of Origin
Molecules,
Journal Year:
2025,
Volume and Issue:
30(3), P. 462 - 462
Published: Jan. 21, 2025
Metal–organic
cages
(MOCs)
are
discrete
supramolecular
entities
consisting
of
metal
nodes
and
organic
connectors
or
linkers;
MOCs
noted
for
their
high
porosity
processability.
Chemically,
they
can
be
post-synthetically
modified
(PSM)
new
functional
groups
introduced,
presenting
attractive
qualities,
it
is
expected
that
properties
will
differ
from
those
the
original
compound.
This
why
highly
regarded
in
fields
biology
chemistry.
The
present
review
deals
with
current
PSM
strategies
used
MOCs,
including
covalent,
coordination,
noncovalent
methods
structural
benefits.
main
emphasis
this
to
show
what
extent
under
circumstances
a
MOC
designed
obtain
tailored
geometric
architecture.
Although
sometimes
unclear
when
examining
systems,
particularizing
design
systematic
approaches
development
characterization
families
provides
insights
into
structure–function
relationships,
which
guide
future
developments.
Language: Английский
Synthesis and Applications of Cage-Based Covalent Organic Frameworks
Crystal Growth & Design,
Journal Year:
2024,
Volume and Issue:
24(14), P. 6081 - 6094
Published: July 1, 2024
Due
to
their
unique
structural
characteristics,
molecular
cages
have
become
pivotal
components
in
supramolecular
chemistry
and
materials
science.
These
possess
the
remarkable
ability
encapsulate
guest
molecules
metal
nanoparticles
within
cavities,
fostering
intriguing
host–guest
interactions
demonstrating
significant
potential
across
various
domains,
including
recognition,
drug
delivery,
catalysis,
material
synthesis.
Integrating
these
with
highly
porous
crystalline
covalent
organic
frameworks
(COFs)
constitutes
a
strategic
avenue
for
enhancing
both
porosity
functional
sites.
This
transition
from
COF
involves
precise
orchestration
of
individual
into
extended,
covalently
bonded
structures
well-defined
porosity.
unlocks
novel
pathways
design
applications,
significantly
enriching
landscape
review
comprehensively
summarizes
synthetic
strategies
employed
fabricating
cage-based
COFs,
explores
diverse
provides
insights
future
prospects
growth
this
rapidly
evolving
field.
Language: Английский
Sulfonatoproxylated cucurbit[7]urils as highly water-soluble and biocompatible excipients for solubilizing poorly soluble drugs and improving the bioavailability of indomethacin
Chinese Chemical Letters,
Journal Year:
2025,
Volume and Issue:
unknown, P. 110831 - 110831
Published: Jan. 1, 2025
Language: Английский
Comparing organic and metallo-organic hydrazone molecular cages as potential carriers for doxorubicin delivery
Chemical Science,
Journal Year:
2024,
Volume and Issue:
15(26), P. 10010 - 10017
Published: Jan. 1, 2024
A
comparative
study
between
a
metallo-organic
cage
and
fully
organic
analogous
system
shows
that
the
molecular
has
suitable
stability
doxorubicin
affinity
for
in
vitro
anticancer
drug
delivery.
Language: Английский
Engineering a Surfactant Trap via Postassembly Modification of an Imine Cage
María Pérez-Ferreiro,
No information about this author
Quinn Gallagher,
No information about this author
A. León
No information about this author
et al.
Chemistry of Materials,
Journal Year:
2024,
Volume and Issue:
unknown
Published: Sept. 4, 2024
Imine
self-assembly
stands
as
a
potent
strategy
for
the
preparation
of
molecular
organic
cages.
However,
challenges
persist,
such
water
insolubility
and
limited
recognition
properties
due
to
constraints
in
application
specific
components
during
process.
In
this
study,
we
addressed
these
limitations
by
initially
employing
locking
strategy,
followed
postassembly
modification.
This
sequential
approach
enables
precise
control
over
both
solubility
host-guest
an
imine-based
cage.
The
resulting
structure
demonstrates
exhibits
exceptional
capacity
selectively
interact
with
anionic
surfactants,
inducing
their
precipitation.
Remarkably,
each
cage
precipitates
24
equiv
surfactants
even
at
concentrations
much
lower
than
surfactant's
critical
micelle
concentration
(CMC),
ensuring
complete
removal.
Molecular
simulations
elucidate
how
specifically
facilitate
aggregation
below
surfactant
CMC
induce
precipitation
micellar
cross-linker.
innovative
class
cages
paves
way
advancement
materials
tailored
environmental
remediation.
Language: Английский
Penetrative Ionic Organic Molecular Cage Nanozyme for the Targeted Treatment of Keratomycosis
Hongwei Wang,
No information about this author
Fangying Song,
No information about this author
Xia Qi
No information about this author
et al.
Advanced Healthcare Materials,
Journal Year:
2024,
Volume and Issue:
unknown
Published: June 19, 2024
Keratomycosis,
caused
by
pathogenic
fungi,
is
an
intractable
blinding
eye
disease.
Corneal
penetration
essential
requirement
for
conventional
antifungal
medications
to
address
keratomycosis.
Due
the
distinctive
anatomical
and
physiological
structure
of
cornea,
therapeutic
efficacy
hampered
inadequate
capacity.
Despite
emergence
diverse
drug
delivery
systems
advanced
nanomaterials,
it
has
remained
challenging
achieve
corneal
over
past
decade.
This
study
fabricates
a
penetrative
ionic
organic
molecular
cage-based
nanozyme
(OMCzyme)
treating
The
synthesis
OMCzyme
involved
two
steps.
Initially,
OMC
synthesized
[2+3]
cycloimination
reaction
triformylphloroglucinol
2,3-diaminopropionic
acid.
Subsequently,
fabricated
coordination
Fe
Language: Английский
Synthesis of a Pd2L4 Hydrazone Molecular Cage Through Multiple Reaction Pathways
International Journal of Molecular Sciences,
Journal Year:
2024,
Volume and Issue:
25(22), P. 11861 - 11861
Published: Nov. 5, 2024
Molecular
cages
are
preorganized
molecules
with
a
central
cavity,
typically
formed
through
the
reaction
of
their
building
blocks
chemical
bonds.
This
requires,
in
most
cases,
forming
and
breaking
reversible
bonds
during
cage
formation
pathway
for
error
correction
to
drive
product.
In
this
work,
we
focus
on
both
Pd-ligand
hydrazone
implemented
structure
Pd
Language: Английский
Requirements of Constrictive Binding and Dynamic Systems on Molecular Cages for Drug Delivery
Targets,
Journal Year:
2024,
Volume and Issue:
2(4), P. 372 - 384
Published: Nov. 19, 2024
Molecular
cages
have
promising
host–guest
properties
for
drug
delivery
applications.
Specifically,
guest⊂cage
complexes
can
be
used
the
on-command
release
of
encapsulated
guest
molecules
in
response
to
specific
stimuli.
This
research
explores
both
dynamic
and
constrictive
binding
systems
encapsulation
biological
environments.
In
systems,
rapidly
passes
in-and-out
through
portals
cage,
enabling
vitro
but
facing
limitations
vivo
due
dilution
effects
that
result
release.
These
challenges
are
addressed
by
where
is
trapped
a
“gate-closed”
state
within
cage.
these
triggered
“gate
opening”
event,
which
lowers
guest–out
energy
barrier.
A
full
achieved
when
gate
opening
reduces
cage–guest
affinity,
making
more
effective
controlled
delivery.
As
result,
this
study
shows
suitable
contexts.
Language: Английский