SMTL ID : 4ffy.1

Crystal structure of DENV1-E111 single chain variable fragment bound to DENV-1 DIII, strain 16007.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

hetero-oligomer

Ligands

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 9 residues within 4Å: Chain A: Q.41, K.49, L.51, P.63, R.65, F.66, D.85, D.86 Ligands: CL.4 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:Q.41, A:K.49, A:K.49, A:R.65, A:D.85, A:D.86

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

CL.2: 2 residues within 4Å: Chain A: K.43, Q.46 Ligand excluded by PLIP CL.3: 5 residues within 4Å: Chain A: Q.42, G.45, Q.46 Chain B: I.93, Y.95 Ligand excluded by PLIP CL.4: 4 residues within 4Å: Chain A: P.63, R.65, D.85 Ligands: GOL.1 Ligand excluded by PLIP CL.6: 3 residues within 4Å: Chain B: D.73, K.74, H.75 Ligand excluded by PLIP

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

SO4.5: 5 residues within 4Å: Chain B: Y.27, T.28, N.31, W.32 Chain C: E.96 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:T.28, B:N.31 Water bridges: B:R.98

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Austin, S.K. et al., Structural Basis of Differential Neutralization of DENV-1 Genotypes by an Antibody that Recognizes a Cryptic Epitope. Plos Pathog. (2012)

Release Date

2012-06-20

Peptides

DENV1-E111 single chain variable fragment (light chain): A
DENV1-E111 single chain variable fragment (heavy chain): B
envelope glycoprotein: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
L

B
H

C
A

DENV1-E111 single chain variable fragment (light chain)

DENV1-E111 single chain variable fragment (heavy chain)

envelope glycoprotein

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