SMTL ID : 4bz1.1

Structure of dengue virus EDIII in complex with Fab 3e31

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

hetero-1-1-1-mer

Ligands

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 2 residues within 4Å: Chain A: H.95, H.96 No protein-ligand interaction detected (PLIP) GOL.6: 8 residues within 4Å: Chain B: P.123, S.124, V.125, Y.126, P.127, V.210, K.212 Chain C: E.129 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:P.123, B:V.125, B:K.212

4 x NA: SODIUM ION(Non-functional Binders)

NA.2: 4 residues within 4Å: Chain B: N.159, S.160, T.198, N.200 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.200 NA.3: 5 residues within 4Å: Chain B: N.159, T.196, I.197, T.198, K.213 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:T.196, B:T.196 NA.4: 5 residues within 4Å: Chain B: F.170, L.181, S.182 Chain C: S.168, S.182 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain C Hydrogen bonds: B:S.182, B:S.182, B:S.182, C:S.182 Water bridges: C:S.168 NA.5: 4 residues within 4Å: Chain B: Y.27, T.28, F.29, S.77 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:F.29, B:S.77, B:S.77

1 x ZN: ZINC ION(Non-covalent)

ZN.7: 5 residues within 4Å: Chain C: R.161, E.191, H.195 Ligands: CL.8, CL.9 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:E.191, C:E.191, C:H.195

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.8: 5 residues within 4Å: Chain C: R.161, E.191, H.195 Ligands: ZN.7, CL.9 Ligand excluded by PLIP CL.9: 5 residues within 4Å: Chain C: E.191, R.194, H.195 Ligands: ZN.7, CL.8 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, J. et al., Structure of Dengue Virus Ediii in Complex with Fab 3E31. To be Published

Release Date

2014-08-13

Peptides

ENVELOPE PROTEIN: A
FAB 3E31 HEAVY CHAIN: B
FAB 3E31 LIGHT CHAIN: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
H

C
L

ENVELOPE PROTEIN

FAB 3E31 HEAVY CHAIN

FAB 3E31 LIGHT CHAIN