Mutation detail:
| Mutation site | A41V |
| Virus | SARS-CoV-2 |
Mutation level  |
Amino acid level |
| Gene/protein/region type | ORF1ab(NSP3) |
| Gene ID | 43740578 |
| Country | - |
| Mutation type |
nonsynonymous mutation |
| Genotype/subtype/clade | - |
| Sample |
Human |
| Variants | - |
| Viral reference sequence | NC_045512.2 |
| Drug/antibody/vaccine | - |
| Transmissibility |
- |
| Transmission mechanism | - |
| Pathogenicity |
- |
| Pathogenicity mechanism | - |
| Immune escape mutation | - |
| Immune escape mechanism | - |
| RT-PCR primers probes | - |
Protein detail:
| Protein name | ORF1ab polyprotein |
| Uniprot protein ID | P0DTC1 |
| Protein length | 7096 amino acids |
| Protein description | ORF1ab, the largest gene, contains overlapping open reading frames that encode polyproteins PP1ab and PP1a. The polyproteins are cleaved to yield 16 nonstructural proteins, NSP1-16. Production of the longer (PP1ab) or shorter protein (PP1a) depends on a -1 ribosomal frameshifting event. The proteins, based on similarity to other coronaviruses, include the papain-like proteinase protein (NSP3), 3C-like proteinase (NSP5), RNA-dependent RNA polymerase (NSP12, RdRp), helicase (NSP13, HEL), endoRNAse (NSP15), 2'-O-Ribose-Methyltransferase (NSP16) and other nonstructural proteins. SARS-CoV-2 nonstructural proteins are responsible for viral transcription, replication, proteolytic processing, suppression of host immune responses and suppression of host gene expression. The RNA-dependent RNA polymerase is a target of antiviral therapies. |
Literature information:
| Pubmed ID | 33253058 |
| Clinical information | No |
| Disease | - |
| Published year | 2021 |
| Journal | OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY |
| Title | A Gapless, Unambiguous RNA Metagenome-Assembled Genome Sequence of a Unique SARS-CoV-2 Variant Encoding Spike S813I and ORF1a A859V Substitutions |
| Author | May S Soliman, May AbdelFattah, Soad M N Aman, Lamyaa M Ibrahim, Ramy K Aziz |
| Evidence | Other than this unique variation, the spike protein in the CU_S3 genome carries three other variations from the reference Wuhan isolate, the most popular of which is the D614G variation that is becoming prevalent worldwide (88% frequency), and two more substitutions at positions 12 and 677 of the spike protein (S12F and Q677H, Fig. 1B, C) with frequencies of -0.11% and -0.19%, respectively. Another rather rare variation is an A-to-V substitution in residue 859 of ORF1a (amino acid 41 in NSP3), the one that encodes the replicase, and that has been seen in only 45/157,853 (-0.03%) global isolates (http://cov-glue.cvr.gla.ac.uk/#/project/replacement/NSP3:A:41:V), including one from Malaysia and one from Italy (Figs. 1D and 2A), and only one from Africa/Egypt (isolate CUNCI-HGC4I031). |