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SARS-CoV-2 Research Resources for Non-Structural and Accessory Proteins

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 After SARS-CoV-2 enters the host cell the viral genomic RNA is translated from two open reading frames (ORFs), ORF1a and ORF1b. The encoded polypeptides, pp1a and pp1ab, are further processed to produce 11 and 16 non-structural proteins (nsps), respectively. These nsps are required for viral replication and pathogenesis. In addition to primary translation, subgenomic RNAs (sgRNAs) are generated by discontinuous transcription and deletions, allowing for translation of both the structural and ORF accessory proteins. The 9 ORF accessory proteins appear to have diverse roles involving host-virus interactions and viral pathogenesis. While the main structural proteins (Spike, Nucleocapsid, Envelope and Membrane) have been well characterized, the ORF accessory proteins and nsps are in general less understood.

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SARS-CoV-2’s genome showing two large ORFs which encode two polyproteins (pp1a and pp1ab) that are processed to produce several nonstructural proteins (nsps) followed downstream by accessory factors and smaller ORFs which encode several structural proteins.


What are SARS-CoV-2 Non-structural Proteins?

Non-structural proteins (nsps) serve different functions in the viral replication cycle. Together the encoded nsps (1-16) form a replicase-transcriptase complex.

Non-structural Proteins (nsps) % Identity SARS-CoV vs SARS-CoV-2 Properties and Functions
nsp1 84% Suppression of host gene expression
nsp2 100% Suppression of host gene expression
nsp3 76% Multi-spanning transmembrane protein. Papain-like protease domain. Mediates cleavage of ORF encoded polypeptides.
nsp4 80% Multi-spanning transmembrane protein. Important for membrane rearrangement.
nsp5 96% Papain-like protease domain. Mediates cleavage of ORF encoded polypeptides.
nsp6 88% Multi-spanning transmembrane protein. Associates with nsp3 and nsp4 to form organelle-like structure (double membrane vesicle) for viral replication. Induces autophagy and formation of Atg5 and LC3 containing vesicles.
nsp7-nsp8 96% Primase complex
nsp9 99% / 97% RNA binding protein. Forms dimer important in viral infection.
nsp10 97% Contains two zinc finger domains. Cofactor for the activation of the replicative enzyme.
nsp11 96% RNA-dependent RNA polymerase activity (RdRP). Mediates genome replication.
nsp12 96% Helicase activity/triphosphatase. RNA and DNA unwinding activity. Involved in viral replication.
nsp13 99% Exoribonuclease activity
nsp14 95% Papain-like protease domain. Mediates cleavage of ORF encoded polypeptides.
nsp15 89% Endoribonuclease activity
nsp15 93% Methyltransferase activity

 

Antibodies to SARS-CoV Non-structural Proteins

Novus offers rabbit polyclonal antibodies to nsp5, nsp8, and nsp13 proteins which are validated in several applications (e.g., WB, ICC/IF, ELISA, IP and IM). Novus Innovator's Reward Program allows you to test some of these available antibodies for the detection of SARS-CoV-2. Additionally, through Novus' 100% guarantee you can test antibodies against SARS-CoV-2 targets sharing 90% or greater homology with proteins in SARS-CoV. Learn more about our 100% guarantee and Innovator's Reward Program.

Antibody Catalog Numbers Antibody Clone Immunogen Sequence Immunogen Percent Identity to SARS-CoV-2 nsps Protein Verified Cross-reactivity
nsp5 (SARS 3C-like proteinase)
NBP1-78110
Rabbit Polyclonal Full-length recombinant protein 96% (294/306) NYD
nsp8
NBP2-89180
Rabbit Polyclonal Full-length SARS-Coronavirus nsp8 97% (193/198) NYD
nsp13
nbp2-89168
Rabbit Polyclonal KLQFTSLEIPRRNVATLQ (584-601 aa) 100% (18/18) NYD
SARS RDRP
NBP2-50258
Mouse Monoclonal Full-length recombinant protein 96% NYD

 

SARS-CoV-2 Recombinant Proteins

Recombinant Proteases Region of Full-Length Protein
Papain-like Protease [E-611-050] 746-1060 aa
SARS-CoV-2 3CL Protease (Avi Epitope Tag) [NBP2-92992] 1-306 aa

 

Antibodies to SARS-CoV-2 Open Reading Frames (ORF) Accessory Proteins

Novus offers multiple rabbit polyclonal antibodies to the Open Reading Frame (ORF) Accessory Proteins of SARS-CoV-2 including ORF3a, ORF6, OFR7a, ORF8, and ORF10. Although the sequence identity for most accessory protein ORFs is greater than 85% between SARS-CoV-2 and SARS-CoV, ORF3, ORF8, and ORF10 show less similarity. The functionality of the SARS-CoV-2 ORF accessory proteins varies widely, though they all contribute to viral pathogenesis. These antibodies have been validated for use in ELISA and WB. Additionally, through Novus' 100% guarantee you can test antibodies for applications that aren't yet validated. Learn more about our 100% guarantee and Innovator's Reward Program.

Open Reading Frame (ORF) Antibody Catalog Numbers Immunogen Properties and Functions
ORF1a NBP3-05735 Peptide from ORF1a polyprotein Encodes for polyprotein 1a which is processed to nsp1 – nsp11.
ORF3a NBP3-05731 Full-length recombinant protein

Interacts with cellular vesicle trafficking and may modify endomembrane compartments to promote viral replication.

Binds TRIM59, role in innate immunity signaling.

ORF3a of SARS-CoV-2 and SARS-CoV has pro-apoptotic activity.

NBP3-05719 N-terminus of ORF3a
NBP3-05709 Within the NT2 of ORF3a
NBP3-05708 Full-length recombinant protein
ORF6 NBP3-05707 ORF6a peptide A role in viral pathogenesis. Has been shown to interact with nsp8, the nonstructural protein that functions in promoting RNA polymerase activity.
ORF7a NBP3-05718 N-terminus of ORF7a Type I transmembrane protein.
NBP3-05733 C-terminus of ORF7a
ORF8 NBP3-05731 Internal sequence of ORF8 Role in MHC I downregulation and inhibition of interferon signaling that may point to SARS-CoV-2 functioning in virus-host processes through macromolecule interactions.
NBP3-05732 Full-length  recombinant protein
NBP3-05734 C- terminus of ORF8
ORF10 NBP3-05710 ORF10 peptide Reported to interact with members of Cullin 2 RING E3 ligase complex and therefore may play a role in ubiquitination and degradation of restriction factors.

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Select References

Ahmadpour, D., & Ahmadpoor, P. (2020). How the COVID-19 Overcomes the Battle? An Approach to Virus Structure. Iranian journal of kidney diseases.

Angelini, M. M., Akhlaghpour, M., Neuman, B. W., & Buchmeier, M. J. (2013). Severe acute respiratory syndrome coronavirus nonstructural proteins 3, 4, and 6 induce double-membrane vesicles. MBio. https://doi.org/10.1128/mBio.00524-13

Gordon, D. E., Jang, G. M., Bouhaddou, M., Xu, J., Obernier, K., White, K. M., O'Meara, M. J., Rezelj, V. V., Guo, J. Z., Swaney, D. L., Tummino, T. A., Hüttenhain, R., Kaake, R. M., Richards, A. L., Tutuncuoglu, B., Foussard, H., Batra, J., Haas, K., Modak, M., Kim, M., … Krogan, N. J. (2020). A SARS-CoV-2 protein interaction map reveals targets for drug repurposing. Nature. https://doi.org/10.1038/s41586-020-2286-9

Kim, D., Lee, J.-Y., Yang, J.-S., Kim, J. W., Kim, V. N., & Chang, H. (2020). The architecture of SARS-CoV-2 transcriptome. Cell. https://doi.org/10.1016/j.cell.2020.04.011

Mohammad, S., Bouchama, A., Mohammad Alharbi, B., Rashid, M., Saleem Khatlani, T., Gaber, N. S., & Malik, S. S. (2020). SARS-CoV-2 ORF8 and SARS-CoV ORF8ab: Genomic Divergence and Functional Convergence. Pathogens. https://doi.org/10.3390/pathogens9090677

Prajapat, M., Sarma, P., Shekhar, N., Avti, P., Sinha, S., Kaur, H., … Medhi, B. (2020). Drug targets for corona virus: A systematic review . Indian Journal of Pharmacology. https://doi.org/10.4103/ijp.IJP_115_20

Ren, Y., Shu, T., Wu, D., Mu, J., Wang, C., Huang, M., Han, Y., Zhang, X. Y., Zhou, W., Qiu, Y., & Zhou, X. (2020). The ORF3a protein of SARS-CoV-2 induces apoptosis in cells. Cellular & molecular immunology. https://doi.org/10.1038/s41423-020-0485-9

Wu, C., Liu, Y., Yang, Y., Zhang, P., Zhong, W., Wang, Y., … Li, H. (2020). Analysis of therapeutic targets for SARS-CoV-2 and discovery of potential drugs by computational methods . Acta Pharmaceutica Sinica B. https://doi.org/10.1016/j.apsb.2020.02.008

Yoshimoto F. K. (2020). The Proteins of Severe Acute Respiratory Syndrome Coronavirus-2 (SARS CoV-2 or n-COV19), the Cause of COVID-19. The protein journal. https://doi.org/10.1007/s10930-020-09901-4