Introduction
(1,2,3) The COVID-19 disease which emerged in China at the end of 2019
was declared in March 2020 a pandemic by the World Health Organization
(WHO) and is accountable for many fatal cases. (2,4,5) On January 202,
the WHO committee declared a global health emergency (3,4-6) based on
the rate of the increasing spread of the infection (4,5-7) with a
reproductive number (RN) in the range 2.0-6.5, 4 higher than SARS and
MERS, (8) with more than 85,000 casualties and fatality rate of about
4%. (1-4) Collaborative efforts for Genomic characterization by using a
simple DNA cryptography genetic code according to the main dogma of
biology has been published that takes plaintext for communicating
information through a process of DNA→RNA→Amino Acid coding. Researchers
in 2010 published a Cryptographic DNA-mobile based Code for Secure
Networks Scheme in which binary plaintext is translated to text via a
substitution wrapping code, introns are inserted into DNA hierarchal
text structure on the general processes of gene expression by the
transcription complex and a binary key is passed to the receiver over a
secure channel to provide the details of the intron insertion. We cannot
imagine a world without cryptography anymore. Whether it is to protect
our banking information, e-mail, or phone calls, cryptography is a vital
part of our digital infrastructure. Modern-day cryptography is usually
split up into two phases. In the key exchange phase, an algorithm such
as Elliptic Curve Diffie-Hellman key exchange (ECDH) or RSA is used to
establish a shared secret key that can be used in an asymmetric
encryption algorithm in the second phase. These algorithms have been and
continue to be well-studied and have proven themselves to be secure if
instantiated with proper parameters and implemented securely. Nowadays
most people favor using cryptographic keys over sticks and more
intricate cryptographic algorithms than wrapping at an angle. This opens
the door to new types of cryptographic attacks. Attack avenues can
roughly be divided into two categories: attacks on the theoretic
algorithm by trying to recover the key or message by using public
information provided on the algorithm, and attacks on the implementation
of the algorithm, which look at the soft- or hardware-specific
properties. (5,6,7-9) Evolution, phylogeny, high contagion rates,
molecular epidemiology, of SARS coronavirus, and epidemiology from
scientists worldwide are underway to understand the rapid spread of the
novel coronavirus (CoVs), and to develop effective coding interactions
of personalized interventions for control and prevention of various
devastating diseases. (1-10) Coronaviruses are positive-single stranded,
and through transcription and ultimately translations enveloped large
RNA viruses that infect humans and a wide range of animals.
((4,6,7,8,9,10) In Latin, Corona means ―crow based on their shapes. As a
comprehensive compendium and megadiverse country, Brazil accounts for
10–20% of known living species of available biogeochemical information
in the world. However, a major part of the biological and chemical
biodiversity in Brazil’s natural products remains unexplored (17). (2–
13,14,15,16,17) Molecular structures as a protein code (ciphe-rprotein)
were determined in heterodox interpretations (22) by solving the
time-independent (21-22) Schrödinger equation: QM methods, vertex
prizes, and edge costs including ab initio
Density Field Theories (DFT) (23) has
become quite a standard approach as a computational Scheme and
semi-empirical in place (24) of the quantum processor and energy under
simulated sampling error among other observables. Density Field Theories
(DFT) is continuously increasing (25) as well as to reposition drugs and
physical extracts about bonding may represent the similarities (26) and
dissimilarities (27) between drugs and repurposed viral proteins,
respectively. (28) However, the Schrödinger equation s in Markovian and
(27) non-Markovian scenarios cannot be solved for any but a one-
data-driven (29) electron system method (the hydrogen atom), to
construct a family of particular solutions of (28) equation (30) and
approximations need to be made. According to QM, (2-19,23) and during
the construction of stochastic Schrödinger (29) equations, an electron
bound that converges quickly and reliably by acknowledging the
conditional Bohmian wavefunction to an atom cannot possess any
(2-17,21,22,23, 24,25,26,2728) arbitrary energy to produce the desired
distribution or occupy any position in space using statistical and
machine (23,24-37,38) learning concepts. The Lindenbaum-Tarski algebra
logical spaces and Bohmian wavefunction-based vectorial re-presentations
on eigenvalue statements were used in this project when analyzing
pharmacological data and have been previously introduced as a 3D logical
subspace allowing a well-defined position for each fragmented
pharmacophore. This shows that the application to quantum computing as
orthogonal applied for the design of small molecules through the example
of three coupled harmonic oscillators in Markovian and (30)
non-Markovian Scheme s may allow pure mechanical computations both for
re-generating Lipinski rules and inferences to bridge the gap between
practical in vitro testing implementations and theoretical docking
scalability predictions. (25,27,28) Since it has been shown that Path
selection into a nonlinear Riemann-Hilbert simple problem of any metal
formula φ for quantum repeater networks towards the determination of the
exact interpolating function of h(λ) can be geometrically represented by
Chern-Simons logical spaces and subspaces I decided to cryptographically
implement supersymmetric solutions and Borel Singularities for N=2
allowing a quantum repeater based vectorial Supersymmetric
representation in this drug design project. (20,26,27,28,29,30,31) In
general, the notions of Lindenbaum matrix and Lindenbaum-Tarski algebra
and its relative development to the product topology continuing to shape
the field of algebraic logic introducing topology on a set to define the
(31) cartesian product of topological spaces as a subbase which has
paved the way until this day, to further algebraization of topology
products, which had been begun by George Boole in the 19th century, as
well as to an innovative language of logic, in a symmetric model theory
containing no other constants but only one connective →. Philosophical
interpretations of QM as a core part of contemporary physics were
conditioned by ideals of what an explanatory theory should be
(Minkowski-type, wave-edge, etc), (20,27,32-33) as well as probabilistic
transformations on algebraic multi-metrics (Triangle area, Bond-angle,
etc) and associated axiomatic formulations (AQFT) treat observables
rather than of the von Neumann formulation and the Dirac formulation
states as foundational according to the interaction information theory
(QIT). (20,33,34,35) In this project, we show an original strategy and
demonstrate the utility and the mechanics of this (32) formalism as an
application within the quantum computing context of perturbed
asymptotically through the example of two coupled anti-de Sitter black
harmonic black-hole oscillators and brane spacetimes. We expect this
Lindenbaum-Tarski driven Chern-Simons representation to generate a valid
QSAR modeling, and a lead compound design formalism, in our molecular
modeling and simulations in order to produce orthogonal coordinates as
applied for the design of a novel multi-chemo-structure against the
crystal structure of COVID-19 protein targets. (29,35,36) A meta server
and a Kappa-Symmetry C algebra of local observables were incorporated
for the docking of FDA-approved small molecules, peptide-mimetic, and
humanized antibodies against potential targets of COVID-19 via a
generalized procedure of Quantization of classical fields which were
fused together with QSAR automating modeling to lead the commutation and
anticommutation relations. (37,39,41,42) Dynamic niching and flexible
heuristic genetic algorithmic states for automatic molecule re-coring
and fragmentation were applied to fragment and re-core a database of
20,000+ molecules for use with the group contribution model Universal
Quasihelical Functional Group Activity Coefficients (UNIFAC) against the
structure and functions of SARS-CoV-2 as linear functional on the
algebra of free energy docking observables. (37,38,40) Hybrid quantum
repeater via a robust creation of entanglement between remote memory
qubits was implemented for predicting drug targets and for multi-target
and multi-site-based virtual screening against COVID-19. The basic idea
developed in Levine (2004) incorporates critical components of what is
to be expected from a ―real‖ signature. (41,42) Flexible Topology
Euclidean Geometric was used to fragment molecules automatically in this
molecular modeling and drug designing project on several parameters
while keeping the definition of the groups as simple as possible.
Artificial Intelligence-Driven Predictive Neural Networks and Quantum-
Inspired frameworks of parallel-Docking interactions were employed for
supercritical entanglements introducing an advanced quantum mechanical
inverse docking algorithm providing further insight to confirm the
practicality of docking energy predictions for wild type and selected
mutations for Nsp3 (papain-like, PLpro domain), Nsp5 Nsp15 (NendoU),
(Mpro, 3CLpro), Nsp12 (RdRp), N protein and Spike in understanding the
key element functions of SARS-CoV-2 protein pathways and in designing
possible novel antiviral agents, from both a quantum algebraic and a
cheminformatic perspective. In this protocol, there are tools from
conventional cryptography that are used along with the principles of the
regulation of computer-aided drug discovery This paper concentrates on
the quantum mechanics-driven drug discovery of the protocol.