SMTL ID : 6y3b.1

Crystal Structure of Unlinked NS2B-NS3 Protease from Zika Virus in Complex with Inhibitor MI-2110

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.59 Å

Oligo State

hetero-1-1-mer

Ligands

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 8 residues within 4Å: Chain B: A.88, A.89, W.90, I.124, G.125, I.148, I.166, Q.168 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:W.90, B:G.125, B:I.148

1 x O7N: 1-[(8~{R},15~{S},18~{S})-15,18-bis(4-azanylbutyl)-4,7,14,17,20-pentakis(oxidanylidene)-3,6,13,16,19-pentazabicyclo[20.3.1]hexacosa-1(25),22(26),23-trien-8-yl]guanidine(Non-covalent)

O7N.2: 19 residues within 4Å: Chain A: G.39, D.40, F.41, S.42 Chain B: H.52, D.130, Y.131, P.132, A.133, S.136, Y.151, G.152, N.153, G.154, V.155, V.156, G.160, S.161, Y.162 19 PLIP interactions: 17 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:V.156, B:Y.162, B:Y.162 Hydrogen bonds: B:S.136, B:G.152, B:N.153, B:N.153, B:G.154, B:G.160, B:Y.162, A:D.40 Water bridges: B:H.52, B:H.52, B:D.130, B:Y.131, B:A.133, B:G.160, A:F.41 Salt bridges: B:D.130

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 4 residues within 4Å: Chain A: L.31, L.43 Chain B: I.157, K.158 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.158 Salt bridges: B:K.158

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Braun, N.J. et al., Structure-Based Macrocyclization of Substrate Analogue NS2B-NS3 Protease Inhibitors of Zika, West Nile and Dengue viruses. Chemmedchem (2020)

Release Date

2020-07-08

Peptides

Genome polyprotein: A
Genome polyprotein: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Genome polyprotein

Genome polyprotein

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