SMTL ID : 7f2b.1

Crystal structure of SARS-CoV-2 nucleocapsid protein C-terminal RNA binding domain at 2.0A resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

6 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.1: 1 residues within 4Å: Chain A: K.86 3 PLIP interactions: 3 interactions with chain A Water bridges: A:D.84, A:K.86 Salt bridges: A:K.86 PO4.2: 2 residues within 4Å: Chain A: R.3, G.19 2 PLIP interactions: 2 interactions with chain A Water bridges: A:R.3 Salt bridges: A:R.3 PO4.4: 5 residues within 4Å: Chain B: D.32, E.34, Y.42, K.43, K.99 4 PLIP interactions: 4 interactions with chain B Water bridges: B:E.34, B:E.34 Salt bridges: B:K.43, B:K.99 PO4.5: 2 residues within 4Å: Chain B: R.3, G.19 6 PLIP interactions: 6 interactions with chain B Water bridges: B:R.3, B:R.3, B:R.3, B:R.3, B:R.3 Salt bridges: B:R.3 PO4.6: 3 residues within 4Å: Chain B: D.32, Q.33, T.106 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:Q.33, B:T.106 Water bridges: B:D.32, B:D.32, B:D.32, B:E.34 PO4.7: 1 residues within 4Å: Chain B: K.86 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:K.86

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.3: 1 residues within 4Å: Chain B: W.45 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jia, Z. et al., Crystal structures of the SARS-CoV-2 nucleocapsid protein C-terminal domain and development of nucleocapsid-targeting nanobodies. Febs J. (2022)

Release Date

2021-09-01

Peptides

Nucleoprotein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

Nucleoprotein