SMTL ID : 3ru8.1

Structure of an HIV epitope scaffold in complex with neutralizing antibody b12 Fab

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.07 Å

Oligo State

hetero-1-1-1-mer

Ligands

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 7 residues within 4Å: Chain A: L.109, Y.110, D.144, A.145, G.146, W.150, M.156 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:L.109, A:Y.110, A:Y.110 Water bridges: A:G.146, A:G.146 GOL.2: 5 residues within 4Å: Chain A: W.40, K.247, L.248, E.251, G.260 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:K.247, A:L.248, A:E.251, A:E.251 Water bridges: A:S.177 GOL.3: 9 residues within 4Å: Chain C: Q.38, R.46, G.58, I.59, S.60, R.62, F.63, E.82, D.83 8 PLIP interactions: 8 interactions with chain C Hydrogen bonds: C:Q.38, C:Q.38, C:G.58, C:S.60, C:R.62, C:D.83 Water bridges: C:K.40, C:E.82 GOL.4: 12 residues within 4Å: Chain B: F.180, P.181, V.183, S.191, L.192, S.193 Chain C: Q.161, E.162, S.163, S.177, S.178, T.179 7 PLIP interactions: 2 interactions with chain B, 5 interactions with chain C Hydrogen bonds: B:F.180, B:S.193, C:S.163, C:T.179, C:T.179, C:T.179, C:T.179

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Azoitei, M.L. et al., Computation-guided backbone grafting of a discontinuous motif onto a protein scaffold. Science (2011)

Release Date

2011-11-02

Peptides

Epitope Scaffold 2bodx43: A
Antibody b12, Heavy Chain: B
Antibody b12, Light Chain: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
X

B
H

C
L

Epitope Scaffold 2bodx43

Antibody b12, Heavy Chain

Antibody b12, Light Chain

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