SMTL ID : 9i81.1

SARS-CoV-2 RdRp bound to a stack of three HeE1-2Tyr molecules

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-2-1-mer

Ligands

3 x 6CJ: N-[8-(cyclohexyloxy)-1-oxo-2-phenyl-1H-pyrido[2,1-b][1,3]benzothiazole-4-carbonyl]-L-tyrosine(Non-covalent)

6CJ.1: 10 residues within 4Å: Chain A: I.589, G.590, A.688, L.758, S.759, S.861, L.862, D.865 Ligands: 6CJ.2, 6CJ.3 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:I.589, A:L.758, A:L.758, A:L.862 Hydrogen bonds: A:G.590 6CJ.2: 20 residues within 4Å: Chain A: H.439, K.545, A.547, I.548, S.549, A.550, R.555, K.593, W.598, M.601, L.758, C.813, S.814, Q.815, P.832, R.836, I.837, A.840 Ligands: 6CJ.1, 6CJ.3 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:A.547, A:K.593, A:L.758, A:R.836 Hydrogen bonds: A:K.545, A:R.555, A:R.836 Salt bridges: A:R.836 6CJ.3: 8 residues within 4Å: Chain A: A.547, I.548, A.840, R.858, S.861, L.862 Ligands: 6CJ.1, 6CJ.2 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:I.548, A:R.858 Hydrogen bonds: A:I.548 pi-Cation interactions: A:R.858

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kabinger, F. et al., Structural basis of SARS-CoV-2 polymerase inhibition by non-nucleoside inhibitor HeE1-2Tyr. To Be Published

Release Date

2025-03-05

Peptides

RNA-directed RNA polymerase nsp12: A
Non-structural protein 8: BD
Non-structural protein 7: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

D
D

C
C

RNA-directed RNA polymerase nsp12

Non-structural protein 8

Non-structural protein 7

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