SMTL ID : 7xwz.2 (1 other biounit)

Crystal structure of SARS-CoV-2 N-NTD and dsRNA complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.25 Å

Oligo State

monomer

Ligands

1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.1: 3 residues within 4Å: Chain A: N.28, N.30, I.110 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.28, A:N.30

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 6 residues within 4Å: Chain A: K.18, F.19, P.20, R.21, I.84, W.85 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:F.19 Water bridges: A:W.85

1 x C- A- C- U- G- A- C: RNA (5'-R(*CP*AP*CP*UP*GP*AP*C)-3')(Non-functional Binders)

C-A-C-U-G-A-C.3: 7 residues within 4Å: Ligands: G-U-C-A-G-U-G.4, G-U-C-A-G-U-G.4, G-U-C-A-G-U-G.4, G-U-C-A-G-U-G.4, G-U-C-A-G-U-G.4, G-U-C-A-G-U-G.4, G-U-C-A-G-U-G.4 Protein-ligand interaction information (PLIP) not available

1 x G- U- C- A- G- U- G: RNA (5'-R(P*GP*UP*CP*AP*GP*UP*G)-3')(Non-covalent)

G-U-C-A-G-U-G.4: 12 residues within 4Å: Chain A: T.2, R.41, R.46, R.48, P.70 Ligands: C-A-C-U-G-A-C.3, C-A-C-U-G-A-C.3, C-A-C-U-G-A-C.3, C-A-C-U-G-A-C.3, C-A-C-U-G-A-C.3, C-A-C-U-G-A-C.3, C-A-C-U-G-A-C.3 Protein-ligand interaction information (PLIP) not available

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Luan, X. et al., Antiviral drug design based on structural insights into the N-terminal domain and C-terminal domain of the SARS-CoV-2 nucleocapsid protein. Sci Bull (Beijing) (2022)

Release Date

2023-02-08

Peptides

Nucleoprotein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Nucleoprotein

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