key: cord-0709864-21d0snk2
authors: Choudhary, Vikram; Gupta, Amisha; Sharma, Rajesh; Parmar, Hamendra Singh
title: Therapeutically effective covalent spike protein inhibitors in treatment of SARS-CoV-2
date: 2021-09-15
journal: J Proteins Proteom
DOI: 10.1007/s42485-021-00074-x
sha: 415ba9b12c03ac67154fb3ea3e9c8e699f2624ec
doc_id: 709864
cord_uid: 21d0snk2

COVID-19 [coronavirus disease 2019] has resulted in over 204,644,849 confirmed cases and over 4,323,139 deaths throughout the world as of 12 August 2021, a total of 4,428,168,759 vaccine doses have been administered. The lack of potentially effective drugs against the virus is making the situation worse and dangerous. Numerous forces are working on finding an effective treatment against the virus but it is believed that a de novo drug would take several months even if huge financial support is provided. The only solution left with is drug repurposing that would not only provide effective therapy with the already used clinical drugs, but also save time and cost of the de novo drug discovery. The initiation of the COVID-19 infection starts with the attachment of spike glycoprotein of SARS-CoV-2 to the host receptor. Hence, the inhibition of the binding of the virus to the host membrane and the entry of the viral particle into the host cell are one of the main therapeutic targets. This paper not only summarizes the structure and the mechanism of spike protein, but the main focus is on the potential covalent spike protein inhibitors.

Coronavirus disease 2019 , an infection caused by SARS-CoV-2 has proven to infect over 204,644,849 confirmed cases and over 4,323,139 deaths throughout the world as of 12 August 2021, a total of 4,428,168,759 vaccine doses have been administered (Coronavirus research centre 2021). Fertility compromise and irreversible lung damage are some of the long-term consequences of COVID-19 patients that suffer from severe infection (Hosseiny et al. 2019; Chen and Lou 2020) . COVID-19 pandemic is not only responsible for the health crisis, but also for the on-going economic crisis throughout the world. The increasing damaging effect of COVID-19 has involved the whole world in working intensively in finding an effective therapeutic agent and preventive measures to fight the SARS-CoV-2 infection (Cascella et al. 2020) . Statistics of Milken Institute reports over 300 treatment options and over 200 vaccine candidates are under the developmental phase worldwide as of December 2020. Vaccine development and de Novo drug development cannot be accomplished within months or years, even huge monetary support is provided (Kaitin 2010a) . Because of this concern, a more promising alternative could be the search for already known drugs for the therapy of COVID-19 to save the world from this pandemic (Fehr and Perlman 2015) .

Drug repurposing, also known as drug redirecting, repositioning, re-profiling, or rediscovering can be used for the development of innovative uses of a drug in addition to its original therapeutic use (Baker et al. 2018) . Drug repurposing can result in a successful lowering of the money and time cost required in drug development (Baker et al. 2018) . The outbreak of COVID-19 has resulted in the repurposing of several clinical drugs for its treatment, such as chloroquine, lopinavir, ritonavir, arbidol, ribavirin, etc. (Maxmen 2020). The therapeutic agents against SARS-CoV-2 can be classified into two extensive categories. The first category is agent that acts on the human immune system and the second category acts on the SARS-CoV-2 virus itself. The latter can be further categorized into two: first being the inhibitors of viral RNA replication and synthesis, and second, those inhibit the binding of the virus with the human cell receptor as evident from the structure of coronavirus shown in Fig. 1 .

The viral entry into the cell is facilitated by the spike [S] protein of the SARS-CoV-2 virus. The viral entry results by binding of the spike protein to the receptors on the host cell and leading to the cell membrane fusion (Hoffmann et al. 2020a) . Additionally, before the spike protein shows its action, it needs to be cleaved and activated by the host cell's cellular proteases (Hoffmann et al. 2020a ). According to a recent study, two cellular proteases can result in the priming of the S protein of coronavirus that are transmembrane protease serine-type 2 [TMPRSS2] and endosomal cysteine proteases cathepsin B/L [CatB/L]. Meanwhile, the cleavage of carboxypeptidase angiotensin-converting enzyme 2 [ACE2], the host receptor of the spike protein, is a consequence of TMPRSS2 that finally results in the augmentation of the infection (Heurich et al. 2014) . Thus, the complete inhibition of the viral entry of the SARS-CoV-2 necessitates the concurrent blockage of CatB/L and TMPRSS2 (Hoffmann et al. 2020a) .

The drug discovery was mainly focused on non-covalent drugs historically. It is believed that irreversible covalent drugs exhibit toxicity and off-target effects (Singh et al. 2011) . However, recently, people have realized that covalent drugs have some additional advantages in comparison to non-covalent drugs, such as [i] enhanced biochemical efficiency as they have a more competitive nature than non-covalent endogenous co-factors and substrates (Mah et al. 2014 ); [ii] reduced and less frequent dosing resulting in reduced patient burden and drug resistance (Mah et al. 2014 ); [iii] target specificity can be improved by cautiously designing structure targeting particular residues (Cuesta et al. 2020; Fell et al. 2020) .

In this review article, we have summarized the structure of the SARS-CoV-2 and the mechanism of infection as well as the treatment options that work as covalent spike protein inhibitors. This paper describes some potential covalent spike protein inhibitors.

The binding of the SARS-CoV-2 to the host cell membrane is mediated through spike [S] protein that is a transmembrane structural class I fusion protein. It exists in a perfusion metastable conformation (Walls et al. 2016; Kirchdoerfer et al. 2016 Kirchdoerfer et al. , 2020 . Lying on the outer membrane of the SARS-CoV-2 virus, the spike glycoprotein is a 1273-amino-acid-long structural polypeptide comprising two subunits that interact with the angiotensin-converting enzyme 2 [ACE2] receptors and fuse the viral and host cell membranes as shown in Figs. 2 and 3. The spike can evade the surveillance of the host immune system while entry due to the polysaccharide molecular coating that camouflages it (Watanabe et al. 2020a ). The homo-trimeric spike [S] glycoprotein is present in two distinct structural states: pre-fusion and post-fusion (Li 2016) and is highly conserved among all human coronaviruses.

In SARS-CoV, and MERS-CoV, the S protein is unstable in their metastable pre-fusion state (Pallesen et al. 2017; Millet and Whittaker 2018) . The two main functional subunits of S protein of SARS-CoV-2, namely S1 and S2, that contains the extracellular domain [ECD] and a transmembrane helix (Hoffmann et al. 2020a ) that are non-covalently linked in a pre-fusion state (Walls et al. 2020; Wan et al. 2020; Tortorici and Veesler 2019) . The structure of the spike protein is shown in Fig. 4 . These are further divided into three chief topological domains, the head, the cytoplasmic tail [CT] , and the stalk. The head part of the SARS-CoV-2 S protein involves multiple domains as obtained from numerous recently published structural studies (Watanabe et al. 2020a; Walls et al. 2020) . The S1 subunit aids in receptor binding. It consists of two domains: the N-terminal domain and the C-terminal receptor-binding domain [RBD] (Li 2020 ). The C-terminal domain consists of the receptor-binding motif [RBM] that is responsible for interaction with the ACE2 receptor ). The S1 part comprising the N-terminal domain [NTD] and the 200-amino-acid-long RBD aids in the determination of host ranges and tissue tropism (Walls et al. 2020; Li 2015; Yan et al. 2020; Lu et al. 2015; Wrapp et al. 2020 ). The S2 subunit which promotes fusion of the viral membrane with the cellular host membrane (Hoffmann et al. 2018; Hulswit et al. 2016; Millet and Whittaker 2018) , consists of the fusion peptide [FP] , hepta-peptide repeat sequence 1 [HR1], HR2, transmembrane [TM] , and cytoplasmic domain [CD] . Cryo-electron microscopy or X-ray experiments do not resolve domains of the S2 subunit in a pre-fusion state, such as HR2 and TM domains, that forms the stalk and the CT.

Considerable conformational changes occur, as S1 engages the 805-amino-acid-long human angiotensinconverting enzyme 2 [hACE2] (Li 2015; Yan et al. 2020; Lu et al. 2015; Towler et al. 2004) receptor of the host cell through the exposed RBD of SARS-CoV-2 and the extracellular domain of ACE2 for receptor binding. The function of NTD, on the other hand, is not well realized. NTD might have a crucial role in the transition of S protein from pre-fusion to the post-fusion stage and also recognition of certain sugar moieties on interaction in some coronaviruses (Lu et al. 2015; Krempl et al. 1997; Künkel and Herrler 1993; Zhou et al. 2019) .

hACE2 encompasses two functional domains, first the N-terminal peptidase M2 domain and the latter C-terminal collectrin domain. There are further two catalytic subdomains along with an active site located between the two subdomains in the peptidase domain (Towler et al. 2004 ).

Similar to SARS-CoV, RBD of SARS-CoV-2 S protein also consists of two subdomains: core and extended loop. the co-crystal structures of SARS-CoV and SARS-CoV-2 S proteins attached with ACE2 demonstrated that the extended loop of RBD directly binds to loops flanked by 2 and 3 helices and a hairpin loop between 3 and 4 sheers of ACE2 receptor Li et al. 2005) . In the infection of a cell, the S protein-membrane binding is activated by specific cellular enzymes like trypsin, furin, cathepsin (Jaimes and Whittaker 2018; Li et al. 2017; Millet and Whittaker 2015) . Genomic analysis has displayed that the S protein of SARS-CoV-2 is distinct from other viruses (Li 2016; Du et al. 2017) , showing that a site in S protein is activated by an HC enzyme called furin as shown in Fig. 5 (Millet and Whittaker 2015) . On attachment of RBD and cell surface hACE2 receptor, shedding of S1 protein from S2 protein takes place alongside its cleavage at the novel furin S1/S2 site by host cell proteases, such as the transmembrane serine protease, TMPPRSS2 (Watanabe et al. 2020a; Hoffmann et al. 2020a ) that mediates cell entry and thought to prime the spike for protein (Davidson et al. 2020; Belouzard et al. 2009 ). Another proteolytic cleavage at S2' site leads to the release of the fusion protein [FP] that penetrates the host cell membrane and facilitates fusion (Apellániz et al. 2014 ). Thus, the enzymes responsible can also serve as potential targets for anti-viral action. External factors including protein digestion (Walls et al. 2019; Walls et al. 2017) , receptor binding, and antibody binding (Walls et al. 2019) lead to the transitional change of S protein into a post-fusion state. This promotes the virus-host cell membrane fusion due to the exposure of a fusion peptide adjacent to the S2' proteolysis site, as well as the RNA virus release and entry, with the S protein folding to a post-fusion conformation (Tortorici and Veesler 2019; Walls et al. 2017; Madu et al. 2009; Millet and Whittaker 2014) . Thus, this makes RBD a potential target for neutralizing antibodies in the development of therapeutic interventions for COVID-19, due to its vital role in the initiation of entry of SARS-CoV-2 (Watanabe et al. 2020a, b) . On entering the virus into the host cell, the viral genome is released, and the RNA genome translates polyproteins, forming non-structural proteins [nsps] from two open reading frames [ORFs] once it enters the host cell. Furthermore, it is also used as a template through RNA-dependent RNA polymerase activity for the process of replication and translation (Fig. 6) .

Proteolytic cleavage results in replication and transcription process and assembly of replicase-transcriptase complex. Once the viral RNA is replicated and structural proteins are synthesized, assembled, and packaged in the host cell, the viral proteins are released (Li et al. 2005) .

While SARS-CoV and SARS-CoV-2 show a high level of similarity ) with S protein binding to the human angiotensin-converting enzyme 2 [ACE2] receptor, the Middle East respiratory syndrome [MERS]-CoV spike protein interacts with dipeptidyl peptidase 4 [DPP4] (Li 2015; Yan et al. 2020 ) which exhibits its low homology toward that of SARS-CoV in the RBD domain. Further, on structural analysis, the residue sequence identity of SARS-CoV and SARS-CoV-2 viruses showed 72% similarity.

The affinity of binding of spike protein to angiotensinconverting enzyme 2 [ACE2] cognate receptor in SARS-CoV-2 is 10-22-fold higher as compared to SARS-CoV (Wrapp et al. 2020; Lan et al. 2020; Shang et al. 2020) . the reason attributed for the same is the presence of more contacts in the interface that covered a larger surface area (Brielle et al. 2020) and also the presence of three hotspots for the mutation in the S protein that results in a more compact and specific conformation (Brielle et al. 2020; Ou et al. 2020 ). According to molecular modeling studies, a distinct Phe residue plays a crucial role in the binding site owing to its interaction with the ACE2 receptor. Additionally, the furin protease cleavage site at S1/S1 also differentiates SARS-CoV-2 from SARS-CoV or other similar bat coronaviruses (Hoffmann et al. 2020a, b; Matsuyama et al. 2020 ).

To save COVID-19 patients, it is important to identify potential and effective drugs that could target SARS-CoV-2. The de novo drug development would take over 15 years from target identification followed by drug validation, then hit discovery followed by lead optimization and further preclinical and clinical trials (Kaitin 2010b) . This is not possible Remdesivir, an experimental drug developed to treat the Middle East respiratory syndrome coronavirus [MERS-CoV] , has been reported to be effective in treating several COVID-19 cases but still lacks clinical data support but undergoing clinical study in Wuhan, China. Likewise, chloroquine, ritonavir/lopinavir, and many other drugs lack the support of clinical data but have been reported as a potential therapeutic against SARS-CoV-2 (Maxmen 2020 (Li and Wang 2020) . Some other potential spike protein inhibitors (Table 1 ) are given in details as follows: 

Ribavirin is a guanosine analog compound that obstructs the replication of both RNA and DNA viruses by inhibiting the RNA-dependent RNA polymerase. Additionally, ribavirin also acts by hindering with RNA capping that depends on natural guanosine to thwart RNA degradation. It destabilizes the viral RNA by inhibiting natural guanosine generation via directly restraining inosine monophosphate dehydrogenase, which is essential for producing guanine precursor to guanosine (Graci and Cameron 2006) . Due to the limited proven capacity as an effective therapeutic agent during MERS-CoV and SARS-CoV outbreaks, clinical testing for ribavirin on SARS-CoV-2 is lacking and limited (Khalili et al. 2020) . According to previous studies investigating the handling of MERS-CoV and SARS-CoV infection, the most familiar complication in the treatment with ribavirin is anemia (Knowles et al. 2003; Yousefi et al. 2020; Omrani . However, in a randomized and open-labeled phase 2 clinical trial study, it was proven that triple antiviral treatment with interferon beta-1b that is lopinavir, ritonavir, and ribavirin was more effective and as compared to ritonavir-lopinavir alone in relieving symptoms, curbing the duration of virus shedding, and a hospital stay of COVID-19 patients with moderate to mild symptoms (Hung et al. 2020; .

While several in vitro studies have indicated the effective activity against SARS-CoV, many studies concluded that ribavirin did not prove to hinder the virus in vivo and also did not boost SARS-CoV-infected patient's recovery (Barnard et al. 2006; Lee et al. 2004 ). These inconclusive researches demonstrate the inefficiency of ribavirin as a beneficial agent against COVID-19.

Although, in the case of combination therapy, ribavirin may provide enhanced clinical efficiency (Sanders et al. 2019; Yousefi et al. 2020; Zhong et al. 2020) . The administration of ribavirin for SARS-CoV-2 infection necessitates further research on the same.

Umfenovir, also known as Arbidol is an indole derivative approved for both the prophylaxis and therapy of influenza A and B in China and Russia (Sanders et al. 2019; Wu et al. 2020b) . It acts by suppressing the influenza virus spread and controlling the expression of inflammatory cytokines both in vitro and in vivo (Wang et al. 2017) . Moreover, it has exhibited potent broad-spectrum antiviral action against both enveloped and non-enveloped viruses, such as Ebola virus, hepatitis C virus, hepatitis B virus, Lassa virus, human herpesvirus 8, and poliovirus (Blaising et al. 2014; Boriskin et al. 2008; Herod et al. 2019; Pecheur et al. 2016) . It shows its action by interfering with numerous stages of the virus life cycle by targeting virus-associated host factors or viral proteins (Blaising et al. 2014 ). In the influenza virus, Arbidol binds to hemagglutinin [HA] , the chief cell surface glycoprotein, and prevents the viral membrane binding (Kadam and Wilson 2017) . Arbidol competently inhibits SARS-CoV-2 infection and has been recognized as a potential therapy for novel SARS-CoV-2 infection. Both the entry of the virus and the post-entry stages are blocked by Arbidol as it hinders the binding of the virus to host cells and intracellular vesicle trafficking (Wang et al. 2020c ). Thus, it prevents the fusion of the membrane of the viral by targeting the engagement between viral S proteins and ACE2 receptors. A retrospective study of February 2020, China, depicted an undetectable viral load in 16 patients administered with umifenovir [200 mg TID], in comparison to a 44.1% viral load detection in patients treated with lopinavir-ritonavir monotherapy [400 mg/100 mg BID] . Similarly, another retrospective cohort study including 16 COVID-19 patients, who were administered with umifenovir and lopinavir-ritonavir or lopinavir-ritonavir monotherapy showed undetectable SARS-CoV using RT-PCR after 14 days of administration in 94% of patients. While only 53% of the control group showed undetectable SARS-CoV. Additionally, the umifenovir experimental group displayed chest improvement, as assessed by CT scans [69% compared to 29% in lopinavir-ritonavir monotherapy]. Therefore, it can be implied that umifenovir may be more effectual than lopinavir-ritonavir in treating COVID-19 (Deng et al. 2020 ).

Dacomitinib is a second-generation tyrosine kinase inhibitor [TKI] that results in inhibition of the activity of tyrosine kinase inside the cells. It shuts the downstream signaling pathways. Originally, it was used in oncology trials and the treatment of malignancies, and initial studies on TKIs were conducted to observe their potential in targeting the epidermal growth factor [EGFR] family (Ciardiello and Tortora 2008; Sim et al. 2018) .

It was suggested that increased fibrotic responses due to the damage to the lungs in SARS infection are prevented by the blockade of EGFR signaling (Venkataraman and Frieman 2017) . Dacomitinib, as a potent EGFR TKI irreversibly binds to the receptors and exhibits a strong cellular potency against EGFR oncogenic variants (Deeks and Keating 2018) . In silico screening of dacomitinib in addition to neratinib and domatinostat as a cathepsin-binding drug that targets viral and host, proteins have also been reported ).

Nafamostat is a broad-spectrum serine protease inhibitor possessing significant anti-coagulant and anti-inflammatory effects that help in inhibiting coagulation factor X, coagulation factor XII, prothrombin, Kallikrein-1, Trypsin 1, and ICAM-1 (Kim et al. 2016) . Approved in South Korea and Japan to treat disseminated intravascular coagulation [DIC], pancreatitis and for hemodialysis procedures, nafamostat is a promising agent for the treatment of COVID-19 (Choi and Kang 2015; Kimura et al. 2020) . It blocks the entry of SARS-CoV-2 inside the host cell by preventing the fusion of the virus envelope with the human cell (Hoffmann et al. 2020c; Yamamoto and Kiso 2020) . Similar to camostat, the action is brought by interacting with Asp435, Ser441, and His 296 residues of the TMPRSS2 gene and its inhibition (Sonawane et al. 2020a ). In Calu-3 lung cells, it reduces the rate of implantation of MERS-CoV and SARS-CoV-2 (Hoffmann et al. 2020a, c; Yamamoto and Kiso 2020; Yamamoto et al. 2016) . Moreover, recent evidence exhibits that COVID-19 can be problematic with coagulopathy, particularly DIC (Kollias et al. 2020) . Thus, its anti-coagulant and anti-viral properties may help in the management of COVID-19 patients with coagulopathy (Asakura 2020) . A case report demonstrated that the combination therapy with nafamostat and heparin is more efficient than heparin monotherapy in stopping circuit thrombosis during venous-venous extracorporeal membrane oxygenation [VV-ECMO] (Doi et al. 2020a) .

Also, in combination with favipiravir, nafamostat mesylate may be efficient for severely ill COVID-19 patients as it may allow blockade of virus entry and replication along with the inhibition of pathogenic host reaction, including hyper-coagulopathy (Doi et al. 2020b ).

Host-targeting antivirals that use deep neural networks [DNN] were made and tested against the coronaviruses. One of the numerous drugs recognized for anti-SARS-CoV-2 activity using deep neural networks is afatinib (Avchaciov et al. 2020) . Afatinib is a small molecule tyrosine kinase inhibitor [TKI] targeting the epidermal growth factor receptor [EGFR] .

EGFR, involved in initiating the critical downstream signaling pathways, promotes cell propagation and angiogenesis and reduces metastasis and apoptosis (Scagliotti et al. 2004) . Clinical findings suggest that non-small lung cancer patients displayed an elevated risk of interstitial lung disease [ILD], a prognostic indication of pulmonary fibrosis, while on treatment with EGFR-TKIs (Kato and Nishio 2006) . A SARS-CoV-2 viral infection will notably worsen the lung damage and likely lead to severe pneumonia of a patient who is already showing adverse signs of ILD after taking EGFR-TKIs treatment. Thus, it is imperative to straightaway discontinue TKIs drug therapy and start active anti-viral treatment in such patients (Cai et al. 2020) . Additionally, clinical studies show afatinib to be able to be safely administered along with a multitude of anti-viral agents (Dunn et al. 2018; Wind et al. 2014) . Afatinib was examined with ribavirin and standard chemotherapy (Dunn et al. 2018 ) in a phase I clinical study using human papillomavirus [HPV] head and neck squamous carcinoma cell and the anti-inflammatory and anti-fibrotic activity was determined (Hardie et al. 2008; Beyer et al. 2010; Chen et al. 2019) .

It is suggested that afatinib can be explored as a potential drug in combination with various anti-virals for the management of COVID-19.

Molecular docking studies and structure-based in silico analysis have identified N-[2-aminoethyl]-1 aziridine-ethanamine as a potent ACE2 inhibitor of SARS-CoV S proteinmediated cell fusion (Huentelman et al. 2004 ). These specific peptide inhibitors can be used to target the host receptor and prevent viral entry.

Thus, inhibitors that interfere with the interaction of RBD with ACE2, such as NAAE, a small molecule inhibitor can prove to be of therapeutic importance. However, tests have not been conducted using these inhibitors on COVID-19 patients.

Similar to nafamostat, camostat mesylate is another serine protease inhibitor used for the treatment of pancreatitis and reflux disease in Japan that hampers the infection caused by the SARS-CoV-2 virus in the lungs (Hoffmann et al. 2020a ). Plasmin, Thrombin, and Kallikrein are blocked as Camostat restricts Trypsin (Ramsey et al. 2019) . Also, the rate of infection of Calu-3 lung cells by the virus is decreased.

It interferes with the TMPRSS2 gene activity whose main function is the priming of S protein of SARS-CoV-2 and promoting the entry of the virus via the ACE2 receptor. Thus, chemostat mesylate can be examined as a capable anti-TMPRSS2 agent (Hoffmann et al. 2020a ). Few tolerable adverse effects related to camostat including pruritus, lightheadedness, and increase in thirst and appetite have been reported (Ramsey et al. 2019) . Additionally, several studies showed that camostat mesylate is rapidly converted into its active metabolite, 4-[4 guanidinobenzoyloxy] phenylacetic acid [GBPA] in humans and animals. GBPA further gets metabolized into the inactive metabolite 4-guanidinobenzoic acid [GBA] . The capability of GBPA to confine the enzymatic activity of TMPRSS2, however, has not been studied (Beckh et al. 1987 (Beckh et al. , 1991 Midgley et al. 1994; Ohki et al. 1980) . It was demonstrated that camostat mesylate more strongly inhibits TMRSS2 in comparison to nafamostat and bromhexine hydrochloride (Sonawane et al. 2020b ).

Emodin belongs to the genus Rheum and Polygonum and is an anthraquinone phytochemical that potentially prevents the interaction between ACE2 host receptor and SARS-CoV. It is revealed that emodin lowers the chances of coronavirus infection as it inhibits the spike protein of the virus (Ho et al. 2007 ). Additionally, Schwarz et al. and colleagues in a recent study found that emodin blocks the 3a ion channel of both SARS coronavirus and human coronavirus OC43 and thus offers a basis for the observed reduction in the release of the virus (Schwarz et al. 2011 ). On the other hand, according to a recent study conducted by Kern DM et al. and colleagues, they found that purified 3a channel activity was not affected by emodin, and no emodin electron density was detected in their singleparticle cryo-EM trial of 3a proteins in the presence of the compound (Kern et al. 2020) . Besides its anti-viral, anti-inflammatory, anti-cancer, and anti-bacterial properties, emodin involves toxic effects including hepatotoxicity, nephrotoxicity, genotoxicity, and reproductive toxicity (Dong et al. 2016; Dewanjee et al. 2020) . Consequently, emodin can be a capable therapeutic candidate for drugs targeting SARS-CoV-2 . However, the limited information and lack of research impede proper studies on emodin as potential drug therapy.

SARS-CoV-2 virus has not only brought health crisis, but also proved to be an unprecedented threat to the economy worldwide. The lack of effective therapy and preventive measures is the main alarming sign so far. The de novo synthesis and discovery of the drug would take several years; hence, the most effective way to tackle the situation is repurposing a drug that would not only reduce the time of drug discovery, but also the cost.

One of the main targets of therapeutics against COVID-19 is the inhibition of spike protein as it aids in both the recognition and binding of the virus to the host cell. Some of the therapeutic agents that have the potential against the spike protein are Ritonavir [antiviral drug] Remdesivir [RdRp inhibitor], Camostat [TMPRSS2 inhibitor], as well as Azithromycin [an antibiotic], and Chloroquine/ Hydroxychloroquine [antimalarials] . Though, the exact potential needs to be proved and necessitates further clinical studies.

Funding This research did not receive any specific grant from funding agencies in the public, commercial, or not-for-profit sectors.

Conflict of interest Authors are not having any kind of financial and personal advantage.

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Host cell proteases: critical determinants of coronavirus tropism and pathogenesis

Physiological and molecular triggers for SARS-CoV membrane fusion and entry into host cells

A novel molecular mechanism to explain mutations of the HCV protease associated with resistance against covalently bound inhibitors

Studies on absorption, distribution, metabolism and excretion of

Ribavirin and interferon alfa-2a for severe Middle East respiratory syn-drome coronavirus infection: a retrospective cohort study

Emergence of RBD mutations in circulating SARS-CoV-2 strains enhancing the structural stability and human ACE2 receptor affinity of the spike protein

Immunogenicity and structures of a rationally designed prefusion MERS-CoV spike antigen

The synthetic antiviral drug arbidol inhibits globally prevalent pathogenic viruses

A phase 1/2 trial to evaluate the pharmacokinetics, safety, and efficacy of NI-03 in patients with chronic pancreatitis: study protocol for a randomized controlled trial on the assessment of camostat treatment in chronic pancreatitis (TACTIC)

Pharmacologic treatments for coronavirus disease 2019 (COVID-19): a review

The biology of epidermal growth factor receptor in lung cancer

Emodin inhibits current through SARS-associated coronavirus 3a protein

Structural basis of receptor recognition by SARS-CoV-2

Saturation in qualitative research: exploring its conceptualization and operationalization

The resurgence of covalent drugs

Plant-derived natural polyphenols as potential antiviral drugs against SARS-CoV-2 via RNA-dependent RNA polymerase (RdRp) inhibition: an in-silico analysis

Homology modeling and docking studies of TMPRSS2 with experimentally known inhibitors camostat mesylate, nafamostat and bromhexine hydrochloride to control SARS-coronavirus-2

Structural insights into coronavirus entry

ACE2 X-ray structures reveal a large hinge-bending motion important for inhibitor binding and catalysis

Optimization of 6,7-disubstituted-4-(arylamino) quinoline-3-carbonitriles as orally active, irreversible inhibitors of human epidermal growth factor receptor-2 kinase activity

The role of epidermal growth factor receptor (EGFR) signaling in SARS coronavirus-induced pulmonary fibrosis

Veesler, Cryo-electron microscopy structure of a coronavirus spike glycoprotein trimer

Tectonic conformational changes of a coronavirus spike glycoprotein promote membrane fusion

Unexpected receptor functional mimicry elucidates activation of coronavirus fusion

Veesler D (2020) Structure, function, and antigenicity of the SARS-CoV-2 spike glycoprotein

Receptor recognition by the novel coronavirus from wuhan: an analysis based on decade-long structural studies of SARS coronavirus

Inhibition of the infectivity and inflammatory response of influenza virus by Arbidol hydrochloride in vitro and in vivo (mice and ferret)

Structural and functional basis of SARS-CoV-2 entry by using human ACE2

The antiinfluenza virus drug, arbidol is an efficient inhibitor of SARS-CoV-2 in vitro

Remdesivir in adults with severe COVID-19: a randomised, double-blind

Site-specific glycan analysis of the SARS-CoV-2 spike

Crispin M (2020b) Vulnerabilities in coronavirus glycan shields despite extensive glycosylation

Pharmacokinetic drug interactions of afatinib with rifampicin and ritonavir

Cryo-EM structure of the 2019-nCoV spike in the prefusion conformation

Analysis of therapeutic targets for SARS-CoV-2 and discovery of potential drugs by computational methods

An update on current therapeutic drugs treating COVID-19

Fusion mechanism of 2019-nCoV and fusion inhibitors targeting HR1 domain in spike protein

The anticoagulant nafamostat potently inhibits SARS-CoV-2 S proteinmediated fusion in a cell fusion assay system and viral infection in vitro in a cell-type-dependent manner

Identification of nafamostat as a potent inhibitor of Middle East respiratory syndrome coronavirus S proteinmediated membrane fusion using the split-protein-based cell-cell fusion assay

Structural basis for the recognition of the SARS-CoV-2 by full-length human ACE2

A global treatment for coronaviruses including COVID-19

In silico screening of Chinese herbal medicines with the potential to directly inhibit 2019 novel coronavirus

Efficacy and safety of current therapeutic options for COVID-19-lessons to be learnt from SARS and MERS epidemic: a systematic review and meta-analysis

Structural definition of a neutralization epitope on the N-terminal domain of MERS-CoV spike glycoprotein

Network-based drug repurposing for novel coronavirus 2019-nCoV/SARS-CoV-2

Arbidol monotherapy is superior to lopinavir/ritonavir in treating COVID-19