SMTL ID : 3ley.1

2F5 Epitope scaffold elicited anti-HIV-1 monoclonal antibody 6a7 in complex with HIV-1 GP41

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.99 Å

Oligo State

hetero-oligomer

Ligands

1 x LEU- LEU- GLU- LEU- ASP- LYS- TRP- ALA- NH2: Envelope glycoprotein gp41(Non-covalent)

LEU-LEU-GLU-LEU-ASP-LYS-TRP-ALA-NH2.1: 18 residues within 4Å: Chain A: Y.33, F.98, G.99, N.100, Y.101, L.102, A.104 Chain B: D.31, D.33, K.35, Y.37, R.51, Y.54, K.58, G.96, T.97, F.99, W.101 24 PLIP interactions: 12 interactions with chain B, 12 interactions with chain A Hydrophobic interactions: B:Y.37, B:Y.37, B:F.99, B:W.101, A:Y.33, A:F.98, A:N.100, A:Y.101, A:A.104 Hydrogen bonds: B:K.35, B:Y.37, B:Y.54, B:Y.54, B:T.97, A:Y.33, A:Y.33, A:N.100, A:N.100, A:Y.101, A:L.102 Water bridges: B:S.32, A:N.100 Salt bridges: B:K.35, B:K.58

3 x ZN: ZINC ION(Non-covalent)

ZN.2: 2 residues within 4Å: Chain A: H.167 Chain B: N.143 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.167, H2O.21, H2O.205 ZN.3: 1 residues within 4Å: Chain A: D.1 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.1, H2O.52, H2O.65 ZN.4: 3 residues within 4Å: Chain B: E.190, R.193, H.194 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.190, B:E.190, B:H.194, H2O.227

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ofek, G. et al., Elicitation of structure-specific antibodies by epitope scaffolds. Proc.Natl.Acad.Sci.USA (2010)

Release Date

2010-09-29

Peptides

6a7 Antibody Heavy Chain: A
6a7 Antibody Light Chain: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
H

B
L

6a7 Antibody Heavy Chain

6a7 Antibody Light Chain