3CLpro	3-chymotrypsin-like proteases
3D	Three-dimensional
3-P	3′-processing
3TC	Lamivudine
5-CITEP	1-(5-chloroindol-3-yl)-3-hydroxy-3-(2H-tetrazol-5-yl)propenone
ABT	ABT199/venetoclax
ACE2	Angiotensin-converting enzyme 2
ACV	Acyclovir
ACV	Acyclovir
ADE	Antibody-dependent enhancement
AI	Artificial Intelligence
ALLINI	Allosteric IN inhibitors
APV	Amprenavir
ART	Antiretroviral therapy
ASV	Asunaprevir
ATV	Atazanavir
BH	Berbamine hydrochloride
BIC	Bictegravir
BOC	Boceprevir
BVDU	Brivudine
BXA	Baloxavir
CAPE	Caffeic acid phenethyl ester
CAR	Coxsackievirus and Adenovirus Receptor
cART	Combination antiretroviral therapy
CCR5	C-C chemokine receptor type 5
CD4	Cluster of differentiation 4
CEN	Cap-dependent endonuclease
CHIKV	Chikungunya Virus
CLR	C-type lectin receptor
CMV	Cucumber Mosaic Virus
COVID-19	Coronavirus disease 2019
CRISPR	Clustered Regularly Interspaced Short Palindromic Repeats
cryo-EM	Cryo-electron microscopy
Cryo-ET	Cryo-electron tomography
CsA	Cyclosporin A
CVB4	Coxsackie B4 virus
CXCR4	C-X-C chemokine receptor type 4
Cyp	Cyclophilin
d4T	Stavudine
DC-SIGN	Dendritic Cell-Specific Intercellular adhesion molecule-3-Grabbing Non-integrin
DdDp	DNA-Dependent DNA Polymerase
DdRp	DNA-Dependent RNA Polymerase
DENV	Dengue Virus
DKA	Diketoacid
DLV	Delavirdine
DNA	Deoxyribonucleic Acid
DOR	Doravirine
DPV	Dapivirine
DRV	Darunavir
dT	Deoxythymidine
DTG	Dolutegravir
EFV	Efavirenz
ENS	Ensitrelvir
ETR	Etravirine
EUA	Emergency use authorization
FDA	Food and Drug Administration
FVP	Favipiravir
G3BP1	Ras GTPase-activating protein SH3-domain-binding protein 1
GLE	Glecaprevir
GTase	m7GTP transferase
GV	Giant viruses
GZR	Grazoprevir
HA	hemagglutinin
HBV	Hepatitis B Virus
HC	Herbacetin
HCoV	Human Coronavirus-
HCV	Hepatitis C Virus
HHV	Human Herpesvirus
HIV	Human Immunodeficiency Virus
HPV	Human Papillomavirus
HS	heparan sulfate
HTLV	Human T-Cell Leukemia Virus
IBD	Integrase binding domain
ICTV	International Committee on Taxonomy of Viruses
IDP	Intrinsically disordered proteins
IDR	Intrinsically disordered regions
IDU	Idoxuridine
IDV	Indinavir
IFN	Interferon
IFN	Interferon
IL-10	Interleukin 10
IN	Integrase
INSTI	Integrase strand transfer inhibitors
INT	Intasome
IQM	Imiquimod
IR	Infrared
ISG	Interferon-Stimulated Genes
KSHV	Kaposi‘s Sarcoma-Associated Herpesvirus
LEDGF/p75	Lens Epithelium-Derived Growth Factor/p75
LPV	Lopinavir
MCV or MCPyV	Merkel Cell Polyomavirus
MD	Molecular Dynamics
MERS-CoV	Middle East respiratory syndrome coronavirus
MINI	Multimerization-selective integrase inhibitor
MOV	Molnupiravir
Mpro	Main protease
MPXV	Monkeypox virus
MTase	Methyltransferase
MXRA8	Matrix remodeling-associated protein 8
NA	Neuraminidase
NFV	Nelfinavir
NiRAN	RdRp-associated nucleotidyltransferase
NMR	Nuclear Magnetic Resonance
NMV	Nirmatrelvir
NNRTI	Non-nucleoside reverse transcriptase inhibitors
NRTI	Nucleoside reverse transcriptase inhibitors
NTD	N-terminal domain
NTD	N-terminal domain
NTP	Nucleoside triphosphate
NVP	Nevirapine
PCV	Penciclovir
PDX	Podofilox
PFA	Foscarnet
PI	Peptide inhibitors
PIC	Pre-integration complex
PLpro	Papain-like protease
PPI	Protein–protein interactions
PRF	Programmed ribosomal frameshifting
PT	Ponatinib
PVY	Potato Virus Y
RABV	Rabies Virus
RBD	Receptor-binding domain
RdRp	RNA-Dependent RNA Polymerase
RDV	Remdesivir
RNA	Ribonucleic Acid
RNase	Ribonuclease
RNP	Ribonucleoprotein
RPV	Rilpivirine
RSV	Respiratory syncytial virus
RT	Reverse Transcriptase
RTV	Ritonavir
RV	Rotavirus
SAH	S-adenosyl homocysteine
SAM	S-adenosyl-l-methionine
SARS-CoV	Severe Acute Respiratory Syndrome Coronavirus
SARS-CoV-2	Severe Acute Respiratory Syndrome Coronavirus 2
SAXS	Small Angle X-ray Scattering
SBDD	Structure-based drug design
SERM	Selective estrogen receptor modulators
SG	Stress granule
SINE	Sinecatechins
SINV	Sindbis Virus
SMV	Simeprevir
SQV	Saquinavir
ST	Strand transfer
TBSV	Tomato bushy stunt virus
TDF	Tenofovir disoproxil fumarate
TEM	Transmission electron microscopy
TK	Thymidine kinase
TMV	Tobacco Mosaic Virus
TPV	Tipranavir
TVR	Telaprevir
VEEV	Venezuelan Equine Encephalitis virus
VLP	Virus-like particle
VOX	Voxilaprevir
VPV	Vaniprevir
VZV	Varicella-zoster virus
WHO	World Health Organization
XFEL	X-ray Free Electron Laser
XRD	X-ray diffraction