SMTL ID : 1tjh.1

Crystal Structure of the broadly neutralizing anti-HIV-1 antibody 2F5 in complex with a gp41 11mer epitope

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

hetero-1-1-1-mer

Ligands

6 x IPA: ISOPROPYL ALCOHOL(Non-functional Binders)

IPA.1: 4 residues within 4Å: Chain A: S.65, G.66, E.70, T.72 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:E.70 Hydrogen bonds: A:S.65 IPA.2: 1 residues within 4Å: Chain A: S.67 No protein-ligand interaction detected (PLIP) IPA.3: 5 residues within 4Å: Chain A: P.43, P.44 Chain B: V.121, W.122 Ligands: IPA.7 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:P.44 Hydrophobic interactions: B:W.122 IPA.6: 3 residues within 4Å: Chain B: N.223, T.224, K.225 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.225, B:K.225 IPA.7: 5 residues within 4Å: Chain B: T.3, L.4, W.122, G.123 Ligands: IPA.3 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:T.3 IPA.8: 2 residues within 4Å: Chain B: T.21, Q.79 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:T.21 Hydrogen bonds: B:Q.79, B:Q.79

2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.4: 5 residues within 4Å: Chain B: R.40, P.42, K.45, E.48, V.90 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.40, B:K.45, B:K.45, B:E.48 EDO.5: 3 residues within 4Å: Chain B: A.112, G.114, P.115 1 PLIP interactions: 1 interactions with chain A Water bridges: A:S.53

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ofek, G. et al., Structure and mechanistic analysis of the anti-human immunodeficiency virus type 1 antibody 2F5 in complex with its gp41 epitope. J.Virol. (2004)

Release Date

2004-10-05

Peptides

anti-HIV-1 antibody 2F5 Light Chain: A
anti-HIV-1 antibody 2F5 Heavy Chain: B
Envelope glycoprotein GP41: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
L

B
H

C
P

anti-HIV-1 antibody 2F5 Light Chain

anti-HIV-1 antibody 2F5 Heavy Chain

Envelope glycoprotein GP41

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