SMTL ID : 5smc.1

PanDDA analysis group deposition -- Crystal Structure of SARS-CoV-2 NSP14 in complex with Z2033637875

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.19 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: 7 residues within 4Å: Chain A: R.77, H.78, L.173, S.174, D.175, R.176, P.293 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:D.175 Water bridges: A:R.77, A:R.77, A:R.80, A:R.80, A:L.173 Salt bridges: A:H.78 PO4.5: 6 residues within 4Å: Chain A: Y.442, S.444, S.446, H.482, H.483, E.486 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:Y.442, A:S.444, A:S.446, A:S.446, A:E.486 Water bridges: A:Y.442, A:S.444 Salt bridges: A:H.482

2 x LRF: N~2~-(4-cyano-3-methyl-1,2-thiazol-5-yl)-N~2~-methylglycinamide(Non-covalent)

LRF.6: 11 residues within 4Å: Chain A: P.351, C.352, N.382, N.384, F.397, Y.416, F.422, H.423, T.424, P.425, F.502 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:Y.416, A:F.502 Hydrogen bonds: A:N.382, A:N.384, A:H.423, A:T.424 Water bridges: A:C.352, A:N.384 pi-Stacking: A:F.422 LRF.7: 8 residues within 4Å: Chain A: E.361, L.362, F.363, Y.364, S.365, S.370, D.371, F.373 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.361, A:S.365, A:D.371

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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