Structure of PDB 7jyy Chain C Binding Site BS01

Receptor Information

>7jyy Chain C (length=297) Species: 2697049 (Severe acute respiratory syndrome coronavirus 2)

SSQAWQPGVAMPNLYKMQRMLLEKCDLQNYGDSATLPKGIMMNVAKYTQL
CQYLNTLTLAVPYNMRVIHFGAGSDKGVAPGTAVLRQWLPTGTLLVDSDL
NDFVSDADSTLIGDCATVHTANKWDLIISDMYDPKTKNVTKENDSKEGFF
TYICGFIQQKLALGGSVAIKITEHSWNADLYKLMGHFAWWTAFVTNVNAS
SSEAFLIGCNYLGKPREQIDGYVMHANYIFWRNTNPIQLSSYSLFDMSKF
PLKLRGTAVMSLKEGQINDMILSLLSKGRLIIRENNRVVISSDVLVN

Ligand information

>7jyy Chain F (length=5)

gauua

.....

Receptor-Ligand Complex Structure

Structure summary

• PDB: 7jyy Mn 2+ coordinates Cap-0-RNA to align substrates for efficient 2'- O -methyl transfer by SARS-CoV-2 nsp16.
• Resolution: 2.05 Å
• Binding residue (original residue number in PDB): C6823 D6824 L6825 Y6828 S6831 A6832 L6834 M6840 N6841 K6844 D6873 K6874 Y6930 P6932 K6935 K6968 T6970 E6971 H6972 S6999 S7000
• Binding residue (residue number reindexed from 1): C25 D26 L27 Y30 S33 A34 L36 M42 N43 K46 D75 K76 Y132 P134 K137 K170 T172 E173 H174 S201 S202

Enzymatic activity

• Enzyme Commision number: 2.1.1.56: mRNA (guanine-N(7))-methyltransferase.
  2.1.1.57: methyltransferase cap1.
  2.7.7.48: RNA-directed RNA polymerase.
  2.7.7.50: mRNA guanylyltransferase.
  3.1.13.-
  3.4.19.12: ubiquitinyl hydrolase 1.
  3.4.22.-
  3.4.22.69: SARS coronavirus main proteinase.
  3.6.4.12: DNA helicase.
  3.6.4.13: RNA helicase.
  4.6.1.-

Gene Ontology

Molecular Function

• GO:0004483 mRNA (nucleoside-2'-O-)-methyltransferase activity

External links

• PDB: RCSB:7jyy, PDBe:7jyy, PDBj:7jyy
• PDBsum: 7jyy
• PubMed: 34131072
• UniProt: P0DTD1|R1AB_SARS2 Replicase polyprotein 1ab (Gene Name=rep)