SMTL ID : 3uc0.2 (1 other biounit)

Crystal structure of domain I of the envelope glycoprotein ectodomain from dengue virus serotype 4 in complex with the fab fragment of the chimpanzee monoclonal antibody 5H2

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.71 Å

Oligo State

hetero-1-1-1-mer

Ligands

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

SO4.1: 4 residues within 4Å: Chain A: S.16, G.17, E.119 Ligands: SO4.2 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.17 Water bridges: A:V.15, A:G.18, A:E.119 SO4.2: 3 residues within 4Å: Chain A: G.17, G.18 Ligands: SO4.1 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.18 SO4.3: 3 residues within 4Å: Chain B: V.2, F.32, R.97 3 PLIP interactions: 3 interactions with chain B Water bridges: B:V.2, B:G.104 Salt bridges: B:R.97 SO4.4: 3 residues within 4Å: Chain C: S.11, L.12, S.13 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:S.11, C:S.13 SO4.5: 1 residues within 4Å: Chain C: K.108 1 PLIP interactions: 1 interactions with chain C Salt bridges: C:K.108 SO4.6: 4 residues within 4Å: Chain C: M.5, T.6, Q.7, G.101 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:M.5, C:Q.7, C:G.101 SO4.7: 2 residues within 4Å: Chain C: P.9, S.10 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:S.10 SO4.8: 4 residues within 4Å: Chain C: R.62, Q.80, E.82 Ligands: SO4.9 2 PLIP interactions: 2 interactions with chain C Water bridges: C:R.62 Salt bridges: C:R.62 SO4.9: 3 residues within 4Å: Chain C: P.60, S.61 Ligands: SO4.8 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:S.61, C:S.61 Water bridges: C:R.62, C:R.62

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cockburn, J.J. et al., Structural insights into the neutralization mechanism of a higher primate antibody against dengue virus. Embo J. (2012)

Release Date

2011-12-14

Peptides

envelope protein: A
Heavy chain, monoclonal antibody 5H2: B
Light chain, monoclonal antibody 5H2: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
I

C
M

envelope protein

Heavy chain, monoclonal antibody 5H2

Light chain, monoclonal antibody 5H2

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