SMTL ID : 5ghw.1

Crystal structure of broad neutralizing antibody 10E8 with long epitope bound

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

hetero-1-1-1-mer

Ligands

7 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.1: 3 residues within 4Å: Chain A: K.138, D.165 Chain B: K.132 2 PLIP interactions: 2 interactions with chain A Water bridges: A:K.138 Salt bridges: A:K.138 PO4.2: 2 residues within 4Å: Chain A: S.149, K.150 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.149 Water bridges: A:P.147, A:S.149 Salt bridges: A:K.150 PO4.3: 7 residues within 4Å: Chain B: D.82, K.105, T.107, S.110, Y.143, K.169, Y.175 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:T.107, B:S.110, B:Y.175 Water bridges: B:T.107 Salt bridges: B:K.105, B:K.169 PO4.4: 6 residues within 4Å: Chain A: P.144, A.146, K.235 Chain B: S.124, S.125, E.126 7 PLIP interactions: 3 interactions with chain A, 4 interactions with chain B Water bridges: A:K.235, A:K.235 Salt bridges: A:K.235 Hydrogen bonds: B:S.125, B:S.125, B:S.125, B:E.126 PO4.5: 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:L.27, B:H.30, B:Y.31 PO4.6: 5 residues within 4Å: Chain A: S.151 Chain B: P.116, S.117, V.118, K.207 4 PLIP interactions: 1 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:S.151, B:V.118 Water bridges: B:K.207 Salt bridges: B:K.207 PO4.7: 5 residues within 4Å: Chain B: K.152, D.154, S.195, E.206, T.208 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:S.195, B:E.206, B:T.208 Salt bridges: B:K.152

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rujas, E. et al., Structural basis for broad neutralization of HIV-1 through the molecular recognition of 10E8 helical epitope at the membrane interface. Sci Rep (2016)

Release Date

2016-11-23

Peptides

FAB 10E8 HEAVY CHAIN: A
FAB 10E8 LIGHT CHAIN: B
Endogenous retrovirus group K member 8 Env polyprotein: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
H

B
L

C
P

FAB 10E8 HEAVY CHAIN

FAB 10E8 LIGHT CHAIN

Endogenous retrovirus group K member 8 Env polyprotein