SMTL ID : 5skw.1

PanDDA analysis group deposition -- Crystal Structure of SARS-CoV-2 NSP14 in complex with Z1272494722

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.09 Å

Oligo State

monomer

Ligands

1 x LF6: {(1R,2R)-2-[(Z)-(3-methyl-1,2,4-thiadiazol-5(2H)-ylidene)amino]cyclopentyl}methanol(Non-covalent)

LF6.1: 8 residues within 4Å: Chain A: W.82, I.83, S.108, T.109, T.169, L.173, R.274, P.408 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:T.169, A:L.173, A:P.408 Hydrogen bonds: A:S.108 Water bridges: A:H.260

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

PO4.2: 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:S.174, A:D.175 Water bridges: A:R.77, A:R.80 Salt bridges: A:H.78 PO4.3: 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

3 x ZN: ZINC ION(Non-covalent)

ZN.4: 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.5: 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.6: 5 residues within 4Å: Chain A: C.203, C.206, R.208, 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

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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