SMTL ID : 8a23.1

Crystal structure of SARS-CoV-2 nsp10/nsp16 methyltransferase in complex with TO383

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

hetero-1-1-mer

Ligands

1 x KW6: (2R,3R,4S,5R)-2-[4-azanyl-5-(2-quinolin-3-ylethynyl)pyrrolo[2,3-d]pyrimidin-7-yl]-5-(hydroxymethyl)oxolane-3,4-diol(Non-covalent)

KW6.1: 14 residues within 4Å: Chain A: G.72, G.74, D.100, L.101, N.102, G.114, D.115, C.116, D.131, M.132, Y.133, D.134, E.148, F.150 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:D.134, A:F.150 Hydrogen bonds: A:G.74, A:L.101, A:N.102, A:D.115, A:C.116, A:Y.133

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 7 residues within 4Å: Chain A: Y.133, K.138, T.173, E.174, H.175, S.202, S.203 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.133, A:T.173, A:T.173, A:S.202

2 x ZN: ZINC ION(Non-covalent)

ZN.3: 4 residues within 4Å: Chain B: C.66, C.69, H.75, C.82 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.66, B:C.69, B:H.75, B:C.82 ZN.4: 4 residues within 4Å: Chain B: C.109, C.112, C.120, C.122 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.109, B:C.112, B:C.120, B:C.122

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hanigovsky, M. et al., Crystal structure of SARS-CoV-2 nsp10/nsp16 methyltransferase incomplex with TO383. To Be Published

Release Date

2023-06-14

Peptides

2'-O-methyltransferase nsp16: A
Non-structural protein 10: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

2'-O-methyltransferase nsp16

Non-structural protein 10

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