SMTL ID : 2yna.1

Crystal structure of the main protease of coronavirus HKU4

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

homo-dimer

Ligands

2 x NI: NICKEL (II) ION(Non-covalent)

NI.1: 4 residues within 4Å: Chain A: L.27, H.41, C.148 Ligands: IMD.2 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:H.41, A:C.148 NI.4: 2 residues within 4Å: Chain B: H.41, C.148 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.41, B:C.148, H2O.22

1 x IMD: IMIDAZOLE(Non-covalent)

IMD.2: 4 residues within 4Å: Chain A: L.27, H.41, C.148 Ligands: NI.1 No protein-ligand interaction detected (PLIP)

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 7 residues within 4Å: Chain A: M.6, S.7, A.8, E.155, D.295, M.298 Chain B: T.126 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.295 Water bridges: A:M.6, A:E.155, A:E.155 GOL.5: 5 residues within 4Å: Chain A: T.126 Chain B: M.6, A.8, D.295, M.298 6 PLIP interactions: 5 interactions with chain B, 1 interactions with chain A Water bridges: B:M.6, B:E.155, B:E.155, B:E.155, B:Q.299 Hydrogen bonds: A:T.126 GOL.6: 5 residues within 4Å: Chain B: F.106, S.107, T.108, S.179, D.181 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:T.108 Water bridges: B:S.107, B:T.108, B:F.180 GOL.7: 6 residues within 4Å: Chain A: G.11, A.12, N.15 Chain B: G.11, E.14, N.15 6 PLIP interactions: 3 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:G.11, B:E.14, B:N.15, A:N.15, A:N.15 Water bridges: A:A.12

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ma, Q. et al., Inhibitor for the Main Protease of Coronavirus Hku4. To be Published

Release Date

2013-10-23

Peptides

3C-LIKE PROTEINASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

3C-LIKE PROTEINASE

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