8cac

X-ray diffraction
2.13Å resolution

Crystal structure of SARS-CoV-2 Mpro-H172Y mutant in complex with 13b-K

Released:
Entry authors: Ibrahim M, El Kilani H, Hilgenfeld R

Function and Biology Details

Reactions catalysed:
GTP + a 5'-diphospho-[mRNA] = diphosphate + a 5'-(5'-triphosphoguanosine)-[mRNA]
Thiol-dependent hydrolysis of ester, thioester, amide, peptide and isopeptide bonds formed by the C-terminal Gly of ubiquitin (a 76-residue protein attached to proteins as an intracellular targeting signal).
TSAVLQ-|-SGFRK-NH(2) and SGVTFQ-|-GKFKK the two peptides corresponding to the two self-cleavage sites of the SARS 3C-like proteinase are the two most reactive peptide substrates. The enzyme exhibits a strong preference for substrates containing Gln at P1 position and Leu at P2 position.
Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
homo dimer (preferred)
PDBe Complex ID:
PDB-CPX-144140 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
3C-like proteinase nsp5 Chains: AAA, BBB
Molecule details ›
Chains: AAA, BBB
Length: 302 amino acids
Theoretical weight: 33.38 KDa
Source organism: Severe acute respiratory syndrome coronavirus 2
Expression system: Escherichia coli
UniProt:
  • Canonical: P0DTC1 (Residues: 3264-3565; Coverage: 7%)
Sequence domains: Coronavirus endopeptidase C30

Ligands and Environments

2 bound ligands:
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PETRA III, DESY BEAMLINE P11
Spacegroup: P212121
Unit cell:
a: 68.032Å b: 101.709Å c: 103.205Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.215 0.212 0.272
Expression system: Escherichia coli