SMTL ID : 1tji.1

Crystal Structure of the broadly neutralizing anti-HIV-1 antibody 2F5 in complex with a gp41 17mer epitope

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

hetero-oligomer

Ligands

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

EDO.1: 3 residues within 4Å: Chain A: K.149, N.152, L.154 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:L.154 Water bridges: A:K.149, A:K.149 EDO.2: 5 residues within 4Å: Chain A: S.10, L.11, S.12, P.141, E.143 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.10 EDO.3: 6 residues within 4Å: Chain B: F.32, G.33, S.55, D.56 Chain C: K.12, W.13 6 PLIP interactions: 5 interactions with chain B, 1 interactions with chain C Hydrogen bonds: B:G.33, B:S.55, B:D.56, B:D.56, C:K.12 Water bridges: B:D.56

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

IPA.4: 3 residues within 4Å: Chain B: T.104, A.112, G.114 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:A.112 IPA.5: 4 residues within 4Å: Chain A: S.65, G.66, E.70, T.72 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:E.70 Hydrogen bonds: A:S.65 Water bridges: A:S.67 IPA.6: 6 residues within 4Å: Chain A: Q.38, K.39, P.40, G.41, S.42 Chain B: Q.41 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:Q.38, A:G.41, A:S.42, B:Q.41 IPA.7: 2 residues within 4Å: Chain B: S.139, V.140 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:P.138, B:V.140 IPA.8: 4 residues within 4Å: Chain B: S.28, T.75, S.76, N.78 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.78 IPA.9: 0 residues within 4Å: (No contacts) 1 PLIP interactions: 1 interactions with chain A Water bridges: A:G.41

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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