SMTL ID : 1qa7.5 (6 other biounits)

CRYSTAL COMPLEX OF THE 3C PROTEINASE FROM HEPATITIS A VIRUS WITH ITS INHIBITOR AND IMPLICATIONS FOR THE POLYPROTEIN PROCESSING IN HAV

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-tetramer

Ligands

4 x IVF: N-(iodoacetyl)-L-valyl-L-phenylalaninamide(Non-covalent)(Covalent)

IVF.1: 13 residues within 4Å: Chain A: Q.15, W.27, V.28, M.29, N.30, T.122, V.123, N.124, H.145, P.169, G.170, M.171, C.172 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:W.27, A:V.28, A:T.122 Hydrogen bonds: A:V.28, A:H.145, A:G.170, A:C.172 IVF.2: 12 residues within 4Å: Chain B: W.27, V.28, M.29, H.44, V.123, N.124, P.169, G.170, M.171, C.172 Chain C: K.106, G.107 11 PLIP interactions: 7 interactions with chain B, 4 interactions with chain C Hydrophobic interactions: B:V.123, B:N.124, C:K.106 Hydrogen bonds: B:V.28, B:G.170, B:C.172 Water bridges: B:W.27, B:M.171, C:K.106, C:K.106 pi-Cation interactions: C:K.106 IVF.3: 11 residues within 4Å: Chain C: Q.15, W.27, V.28, M.29, N.30, T.122, K.147, P.169, G.170, M.171, C.172 8 PLIP interactions: 8 interactions with chain C Hydrophobic interactions: C:Q.15, C:W.27, C:V.28, C:K.147 Hydrogen bonds: C:V.28, C:G.170, C:C.172 Water bridges: C:M.171 IVF.4: 10 residues within 4Å: Chain D: Q.15, W.27, V.28, M.29, T.122, N.124, H.145, G.170, M.171, C.172 5 PLIP interactions: 5 interactions with chain D Hydrophobic interactions: D:W.27, D:V.28 Hydrogen bonds: D:V.28, D:G.170, D:C.172

1 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.5: 3 residues within 4Å: Chain D: K.136, R.162, I.198 No protein-ligand interaction detected (PLIP)

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 3 residues within 4Å: Chain D: L.3, R.10, L.129 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:L.3, D:R.10, D:R.10

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bergmann, E.M. et al., Crystal structure of an inhibitor complex of the 3C proteinase from hepatitis A virus (HAV) and implications for the polyprotein processing in HAV. Virology (1999)

Release Date

1999-04-20

Peptides

HAV 3C PROTEINASE: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

HAV 3C PROTEINASE

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