SMTL ID : 5sah.1

PanDDA analysis group deposition -- Crystal Structure of SARS-CoV-2 NendoU in complex with EN300-100112

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.16 Å

Oligo State

homo-hexamer

Ligands

6 x ZQJ: 2-methyl-5,6,7,8-tetrahydropyrido[4,3-c]pyridazin-3(2H)-one(Non-covalent)

ZQJ.1: 4 residues within 4Å: Chain A: E.194, T.195, Y.196, E.307 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:Y.196 pi-Stacking: A:Y.196 ZQJ.2: 4 residues within 4Å: Chain B: E.194, T.195, Y.196, E.307 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:Y.196 pi-Stacking: B:Y.196 ZQJ.3: 4 residues within 4Å: Chain C: E.194, T.195, Y.196, E.307 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:Y.196 pi-Stacking: C:Y.196 ZQJ.4: 4 residues within 4Å: Chain D: W.335, E.342, T.343, Y.345 5 PLIP interactions: 5 interactions with chain D Hydrophobic interactions: D:W.335, D:T.343 Hydrogen bonds: D:Y.345 pi-Stacking: D:W.335, D:W.335 ZQJ.5: 4 residues within 4Å: Chain E: W.335, E.342, T.343, Y.345 5 PLIP interactions: 5 interactions with chain E Hydrophobic interactions: E:W.335, E:T.343 Hydrogen bonds: E:Y.345 pi-Stacking: E:W.335, E:W.335 ZQJ.6: 4 residues within 4Å: Chain F: W.335, E.342, T.343, Y.345 5 PLIP interactions: 5 interactions with chain F Hydrophobic interactions: F:W.335, F:T.343 Hydrogen bonds: F:Y.345 pi-Stacking: F:W.335, F:W.335

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Godoy, A.S. et al., Allosteric regulation and crystallographic fragment screening of SARS-CoV-2 NSP15 endoribonuclease. Nucleic Acids Res. (2023)

Release Date

2021-06-09

Peptides

Uridylate-specific endoribonuclease: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
B

E
B

F
B

Uridylate-specific endoribonuclease

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