SMTL ID : 7h2b.1

PanDDA analysis group deposition -- Crystal Structure of ZIKV NS2B-NS3 protease in complex with Z1272517105

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

hetero-1-1-mer

Ligands

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

DMS.1: 6 residues within 4Å: Chain A: D.32, V.33, V.44 Chain B: K.108, T.109, K.110 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:D.32 DMS.2: 8 residues within 4Å: Chain B: Y.121, P.122, A.123, S.126, Y.141, G.142, Y.152 Ligands: DMS.4 1 PLIP interactions: 1 interactions with chain B pi-Cation interactions: B:Y.152 DMS.3: 3 residues within 4Å: Chain B: K.45, G.46, A.47 No protein-ligand interaction detected (PLIP) DMS.4: 6 residues within 4Å: Chain B: G.142, N.143, G.144, Y.152 Ligands: DMS.2, DMS.7 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:G.144 DMS.6: 1 residues within 4Å: Chain B: R.96 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.96 DMS.7: 7 residues within 4Å: Chain A: S.38, G.39, D.40 Chain B: H.42, D.66, N.143 Ligands: DMS.4 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Salt bridges: A:D.40, B:D.66 Water bridges: B:D.66 DMS.8: 4 residues within 4Å: Chain A: S.42, L.43 Chain B: V.145, V.146 No protein-ligand interaction detected (PLIP) DMS.9: 2 residues within 4Å: Chain B: K.64, K.110 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.110 Water bridges: B:K.64 DMS.10: 8 residues within 4Å: Chain A: S.28 Chain B: W.80, G.82, L.83, L.103, P.104, G.105, I.106 No protein-ligand interaction detected (PLIP)

1 x 01: {(1S,2S)-1-methyl-2-[(3-methyl-1,2,4-thiadiazol-5-yl)amino]cyclopentyl}methanol

01.5: 7 residues within 4Å: Chain A: L.35 Chain B: K.64, Q.65, T.109, D.111, G.112, I.114 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:I.114 Hydrogen bonds: B:T.109 Water bridges: B:Q.65, B:T.109

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ni, X. et al., PanDDA analysis group deposition of ZIKV NS2B-NS3 protease. To Be Published

Release Date

2024-05-08

Peptides

Serine protease subunit NS2B: A
Serine protease NS3: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Serine protease subunit NS2B

Serine protease NS3

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