TABLE 2.
Classification and abbreviations for viruses used in this study
| Abbreviation | Species (strain) | NCBI taxon IDa | PDB IDb (reference) | Genus | Family | Nucleic acidd | Host kingdom |
|---|---|---|---|---|---|---|---|
| AAV4 | Adeno-associated virus 4 | 57579 | 2G8G (73) | Dependoparvovirus | Parvoviridae | ssDNA | Animalia |
| BDMV | Belladonna mottle virus | 12149 | Tymovirus | Tymoviridae | ssRNA | Plantae | |
| BP29 | Bacillus phage Φ29 | 10756 | Salasvirus | Podoviridae | dsDNA | Bacteria | |
| CCMV | Cowpea chlorotic mottle virus | 12303 | 1CWP (74) | Bromovirus | Bromoviridae | ssRNA | Plantae |
| CMV | Cucumber mosaic virus (FNY) | 12307 | 1F15 (75) | Cucumovirus | Bromoviridae | ssRNA | Plantae |
| CPaV2 | Canine parvovirus 2 | 10790 | Protoparvovirus | Parvoviridae | ssDNA | Animalia | |
| CPaV2c | Feline panleukopenia virus | 10787 | 1C8G (76) | Protoparvovirus | Parvoviridae | ssDNA | Animalia |
| CRPV | Cottontail rabbit papillomavirus (Kansas) | 31553 | Kappapapillomavirus | Papillomaviridae | dsDNA | Animalia | |
| CRPVc | Human papillomavirus 16 | 333760 | 5KEQ (77) | Alphapapillomavirus | Papillomaviridae | dsDNA | Animalia |
| CXA21 | Human coxsackievirus A21 | 12070 | 1Z7S (78) | Enterovirus | Picornaviridae | ssRNA | Animalia |
| CXB5 | Human coxsackievirus B5 (Peterborough) | 103907 | Enterovirus | Picornaviridae | ssRNA | Animalia | |
| CXB5c | Human coxsackievirus B3 | 103904 | 1COV (79) | Enterovirus | Picornaviridae | ssRNA | Animalia |
| EBFR | Enterobacteria phage fr | 12017 | 1FRS (80) | Levivirus | Leviviridae | ssRNA | Bacteria |
| EBGA | Enterobacteria phage GA | 12018 | 1GAV (34) | Levivirus | Leviviridae | ssRNA | Bacteria |
| EBMS2 | Enterobacteria phage MS2 | 329852 | 2MS2 (81) | Levivirus | Leviviridae | ssRNA | Bacteria |
| EBQB | Enterobacteria phage Qβ | 39803 | 5VLY (82) | Allolevivirus | Leviviridae | ssRNA | Bacteria |
| EBSP | Enterobacteria phage SP | 12027 | Allolevivirus | Leviviridae | ssRNA | Bacteria | |
| EBT4 | Enterobacteria phage T4 | 10665 | 5VF3 (83) | Tequatrovirus | Myoviridae | dsDNA | Bacteria |
| ECV1 | Echovirus 1 (Farouk) | 103908 | 1EV1 (84) | Enterovirus | Picornaviridae | ssRNA | Animalia |
| ELV | Erysimum latent virus | 12152 | Tymovirus | Tymoviridae | ssRNA | Plantae | |
| HAdV5 | Human adenovirus 5 | 28285 | 4V4U (85) | Mastadenovirus | Adenoviridae | dsDNA | Animalia |
| HHAV | Hepatitis A virus (HM175) | 12098 | 4QPI (86) | Hepatovirus | Picornaviridae | ssRNA | Animalia |
| HRV2 | Human rhinovirus 2 | 12130 | 1FPN (87) | Enterovirus | Picornaviridae | ssRNA | Animalia |
| MEV | Mengo encephalomyocarditis virus | 12107 | 2MEV (88) | Cardiovirus | Picornaviridae | ssRNA | Animalia |
| NOR1 | Norwalk virus (Funabashi) | 524364 | 1IHM (89) | Norovirus | Caliciviridae | ssRNA | Animalia |
| PHIX | Enterobacteria phage ΦX174 (Sanger) | 10847 | 2BPA (90) | Sinsheimervirus | Microviridae | ssDNA | Bacteria |
| PM2 | Pseudoalteromonas phage PM2 | 10661 | 2W0C (91) | Corticovirus | Corticoviridae | dsDNA | Bacteria |
| POL1 | Poliovirus (Mahoney) | 12081 | 1HXS (92) | Enterovirus | Picornaviridae | ssRNA | Animalia |
| PRD1 | Enterobacteria phage PRD1 | 10658 | 1W8X (93) | Alphatectivirus | Tectiviridae | dsDNA | Bacteria |
| RCNM | Red clover necrotic mosaic virus | 12267 | 6MRM (94) | Dianthovirus | Tombusviridae | ssRNA | Plantae |
| REO3 | Reovirus 3 (Dearing) | 10886 | 2CSE (95) | Orthoreovirus | Reoviridae | dsRNA | Animalia |
| SBMV | Southern bean mosaic virus | 652938 | 4SbV (96) | Sobemovirus | Solemoviridae | ssRNA | Plantae |
| ScrMV | Scrophularia mottle virus | 312273 | Tymovirus | Tymoviridae | ssRNA | Plantae | |
| SRVA | Simian rotavirus A (SA11) | 450149 | 4V7Q (97) | Rotavirus | Reoviridae | dsRNA | Animalia |
| TBMV | Tobacco mosaic virus (Vulgare) | 12243 | Tobamovirus | Virgaviridae | ssRNA | Plantae | |
| TYMV | Turnip yellow mosaic virus | 12154 | 1AUY (98) | Tymovirus | Tymoviridae | ssRNA | Plantae |
a
National Center for Biotechnology Information (http://www.ncbi.nlm.nih.gov) taxonomic identifier (ID) (99).
b
Protein Data Bank (https://www.rcsb.org/) ID used for 3D structural comparisons (100).
c
Alternate species/strain used for 3D structure only.
d
ssDNA, single-stranded DNA; ssRNA, single-stranded RNA; dsDNA, double-stranded DNA; dsRNA, double-stranded RNA.