SMTL ID : 4ktd.1

Fab fragment of HIV vaccine-elicited CD4bs-directed antibody, GE136, from non-human primate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

hetero-oligomer

Ligands

3 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 1 residues within 4Å: Chain A: T.74 1 PLIP interactions: 1 interactions with chain A Water bridges: A:T.74 SO4.2: 5 residues within 4Å: Chain A: V.175, H.176 Chain B: K.175, Q.176, S.177 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:T.177, B:S.177 Salt bridges: A:H.176 Water bridges: B:N.178 SO4.3: 5 residues within 4Å: Chain A: K.109 Chain B: R.32, Y.33, S.34, F.53 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:S.34 Water bridges: B:W.99, B:W.99, A:K.109 Salt bridges: A:K.109

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 7 residues within 4Å: Chain B: E.91, T.113, V.114, Q.117, Y.149, K.175, Y.181 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:E.91, B:K.175, B:Y.181 GOL.5: 5 residues within 4Å: Chain B: S.9, L.10, S.11, P.150, E.207 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:S.9, B:S.9, B:S.11, B:E.207, B:E.207 Water bridges: B:T.113

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tran, K. et al., Vaccine-elicited primate antibodies use a distinct approach to the HIV-1 primary receptor binding site informing vaccine redesign. Proc.Natl.Acad.Sci.USA (2014)

Release Date

2014-02-05

Peptides

GE136 Heavy Chain Fab: A
GE136 Light Chain Fab: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
H

B
L

GE136 Heavy Chain Fab

GE136 Light Chain Fab