Table 1. Available Structures (X-ray, NMR, or EM) are from 17 Proteins Encoded in the SARS-CoV-2 Genome and Three Proteins Encoded in the SARS-CoV Genomea.
protein | description | experimental structures at PDB |
---|---|---|
NSP1 | inhibits host translation by interacting with the 40S ribosomal subunit42 | SARS-CoV-2; 7JQB (cryoEM), 7K7P and 7K3N |
NSP2 | involved in the disruption of intracellular host signaling during SARS-CoV infections43 | |
NSP3 | multidomain protein including the papain-like protease domain; involved in cutting the N-terminal part of PP1a and PP1ab to mature NSP1, NSP2, and NSP3 itself and altering many of the infected host proteins; interacts with NSP429 | SARS-CoV-2; PLpro domain (6WUU, 6WX4, 6W9C, 6WZU, 6YVA, 6WRH, 7KRX, 7KOK, and 7D6H), ARH domain (6WOJ, 6WEY, 6YWK, 6YWL, 6YWM, 6WEN, 6VXS, 6W02, 6WCF, 6W6Y, 7KXB, 7LG7, 6Z5T, 7BF5, 7C33, 7CZ4, and 7KG3) |
NSP4 | forms virally induced cytoplasmic double-membrane vesicles necessary for viral replication44 | |
NSP5 | 3C-like protease maturing most of the NSPs (NSP4–NSP16) from PP1ab33,34,45−48 | SARS-CoV-2; 137 structures (6LU7, 6M2Q, and 135 more) |
NSP6 | forms virally induced cytoplasmic double-membrane vesicles necessary for viral replication44 | |
NSP7 | cofactor of RNA-dependent RNA polymerase (NSP12)35,49,50 | SARS-CoV-2; 7BV1, 7BW4, 7BV2, 6WTC, 6WIQ, 6WQD, 6M71, 7BTF, 6YYT, 6YHU, and 7DCD |
NSP8 | cofactor of RNA-dependent RNA polymerase (NSP12)35,49,50 | SARS-CoV-2; 7BV1, 7BW4, 7BV2, 6WTC, 6WIQ, 6WQD, 6M71, 7BTF, 6YYT, 6YHU, and 7DCD |
NSP9 | single-stranded RNA-binding protein; interacts with NSP836 | SARS-CoV-2; 6W4B, 6WXD, and 6W9Q |
NSP10 | critical co-factor for the activity of 3′ → 5′ exonuclease (NSP14) and 2′-O-ribose methyltransferase (NSP16)51 | SARS-CoV-2; 6WKQ, 7C2J, 7C2I, 6WKS, 6W61, 6WVN, 6WQ3, 6WJT, 6WRZ, 6W4H, 6W75, 6YZ1, 7KOA, 7L6T, 6ZPE, and 6ZCT |
NSP11 | the leftover of PP1a fragmentation52 | |
NSP12 | RNA-dependent RNA polymerase, responsible for replication and transcription of the viral RNA genome35,49,50,53 | SARS-CoV-2; 7BTF, 7BV1, 7BV2, 6YYT, 7BW4, 7L1F, 7B3B, and 7D4F |
NSP13 | helicase; interacts with NSP1254 | SARS-CoV-2; 7NN0 and 7NIO |
NSP14 | N-terminal 3′ → 5′ exonuclease domain and C-terminal N7-guanine-methyltransferase domain51 | SARS-CoV; 5C8U, 5C8S, 5C8T, and 5NFY |
NSP15 | uridylate-specific endoribonuclease55,56 | SARS-CoV-2; 6W01, 6WXC, 6WLC, 6X1B, 6VWW, 7K0R, 7KEG, 5S71, 7K1O, and 7K9P |
NSP16 | 2′-O-ribose methyltransferase mediating the 5′-cap structure of viral mRNAs39,51 | SARS-CoV-2; 6WKQ, 7C2J, 7C2I, 6WKS, 6W61, 6WVN, 6WQ3, 6WJT, 6WRZ, 6W4H, 6W75, 6YZ1, 7KOA, and 7L6T |
S | spike glycoprotein interacting with the host receptor protein ACE212,13,40,57−61 | SARS-CoV-2; receptor-binding domain (6VSB, 7BZ5, 6M0J, 6M17, 6W41, 7C01, 6LZG, 6YM0, 6YLA, 6YOR, and 6VW1), S2 domain (6LXT and 6LVN), cryoEM of the full-length (6VXX, 6WPT, 6WPS, 6VYB, 6X29, 6X2C, 6X2A, and 6X2B) |
ORF3a | accessory protein; activates the NLRP3 inflammasome62 | SARS-CoV-2; 7KJR (cryoEM) |
ORF3b | accessory protein; IFN antagonist6 | |
E | envelope protein; mediates virus morphogenesis and assembly63,64 | SARS-CoV; 5X29 and 2MM4 |
M | membrane glycoprotein; involved in virus morphogenesis and assembly44,63 | |
ORF6 | accessory protein; antagonizes type I interferon65 | |
ORF7a | accessory protein; inhibits the antiviral function of bone marrow stromal antigen 2 (BST-2)66 | SARS-CoV-2; 6W37 and 7CI3 |
ORF7b | accessory protein and a structural component of the SARS-CoV virion67 | SARS-CoV; 6W37 |
ORF8 | accessory protein; important for interspecies transmission of the virus; activates the NLRP3 inflammasome68,69 | SARS-CoV-2; 7JX6 |
ORF9b | accessory protein; suppresses innate immunity by targeting mitochondria and the MAVS/TRAF3/TRAF6 signalosome70 | SARS-CoV-2; 7KDT (cryoEM) |
ORF9c | unknown52 | |
N | nucleocapsid phosphoprotein; packages the viral RNA genome41,71 | SARS-CoV-2; N-terminal RNA-binding domain (6YI3, 6M3M, 6WKP, 6VYO, and 7CR5), C-terminal dimerization domain (6WZQ, 6WZO, 6WJI, 6YUN, and 7C22) |
ORF10 | unknown; may not be produced7 |
PDB code(s) of the structures are listed for each protein, when available, together with the attributed functions for the viral proteins.