SMTL ID : 5t6l.1 (1 other biounit)

Crystal structure of 10E8 Fab in complex with the MPER epitope scaffold T117v2

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

hetero-1-1-1-mer

Ligands

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 9 residues within 4Å: Chain A: N.31, W.33, G.53, P.54, G.55, E.56, K.103 Chain C: S.72, G.112 7 PLIP interactions: 6 interactions with chain A, 1 interactions with chain C Hydrogen bonds: A:N.31, A:G.53, A:G.53, A:G.55, A:E.56, A:K.103, C:S.72 GOL.2: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) GOL.3: 3 residues within 4Å: Chain A: Y.105 Chain C: W.114, I.117 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.105 GOL.5: 6 residues within 4Å: Chain B: L.27, R.28, S.29, H.30, Y.31, A.65 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:H.30, B:A.65 Water bridges: B:G.67 GOL.6: 5 residues within 4Å: Chain A: P.113 Chain B: G.94, R.96 Chain C: F.115, N.119 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain C Hydrogen bonds: B:G.94, B:R.96, B:R.96, C:N.119, C:N.119

1 x EPE: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID(Non-functional Binders)

EPE.4: 10 residues within 4Å: Chain A: Q.39, G.42, K.43, G.44 Chain B: K.37, E.84, Y.86, G.102, G.103, T.166 6 PLIP interactions: 5 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:Y.86, B:G.103, A:Q.39 Salt bridges: B:K.37, B:E.84, B:E.84

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Irimia, A. et al., Lipid interactions and angle of approach to the HIV-1 viral membrane of broadly neutralizing antibody 10E8: Insights for vaccine and therapeutic design. PLoS Pathog. (2017)

Release Date

2017-03-08

Peptides

Antibody 10E8 FAB HEAVY CHAIN: A
Antibody 10E8 FAB LIGHT CHAIN: B
10E8 EPITOPE SCAFFOLD T117V2: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
H

B
L

C
I

Antibody 10E8 FAB HEAVY CHAIN

Antibody 10E8 FAB LIGHT CHAIN

10E8 EPITOPE SCAFFOLD T117V2

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