SMTL ID : 5sm2.1

PanDDA analysis group deposition -- Crystal Structure of SARS-CoV-2 NSP14 in complex with Z3006151474

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.78 Å

Oligo State

monomer

Ligands

3 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: H.253, C.257, H.260, C.275 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.253, A:C.257, A:H.260, A:C.275 ZN.2: 4 residues within 4Å: Chain A: C.448, C.473, C.480, H.483 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.448, A:C.473, A:C.480, A:H.483 ZN.3: 4 residues within 4Å: Chain A: C.203, C.206, C.222, H.225 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.203, A:C.206, A:C.222, A:H.225

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

PO4.4: 5 residues within 4Å: Chain A: R.77, H.78, S.174, D.175, P.293 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:D.175 Water bridges: A:R.77, A:R.80, A:R.80 Salt bridges: A:H.78 PO4.5: 5 residues within 4Å: Chain A: Y.442, S.444, S.446, H.482, E.486 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:Y.442, A:S.444, A:S.444, A:S.446, A:E.486 Water bridges: A:D.445 Salt bridges: A:H.482

2 x LQ3: (5S)-5-(difluoromethoxy)pyridin-2(5H)-one(Non-covalent)

LQ3.6: 8 residues within 4Å: Chain A: N.330, P.351, N.382, F.397, Y.416, F.422, T.424, F.502 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.330, A:T.424 Water bridges: A:N.382 pi-Stacking: A:F.422 LQ3.7: 10 residues within 4Å: Chain A: V.25, I.51, F.56, K.57, M.58, Y.65, P.66, N.67, M.68, I.197 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:I.51, A:M.58, A:I.197 Hydrogen bonds: A:M.58, A:M.68

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Imprachim, N. et al., PanDDA analysis group deposition. To Be Published

Release Date

2022-03-16

Peptides

Proofreading exoribonuclease nsp14: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

Proofreading exoribonuclease nsp14

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