SMTL ID : 6o41.2 (2 other biounits)

Crystal structure of the unbound PGZL1 germline Fab fragment (PGZL1_gVmDmJ)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.47 Å

Oligo State

hetero-1-1-1-mer

Ligands

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 10 residues within 4Å: Chain A: Q.161, S.163, S.177, S.178, T.179 Chain B: F.177, P.178, S.188, L.189, S.190 6 PLIP interactions: 2 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:P.178, B:S.190, A:Q.161, A:S.163, A:T.179, A:T.179 GOL.2: 6 residues within 4Å: Chain A: T.165, E.166, D.168 Chain B: V.174, H.175, T.176 6 PLIP interactions: 3 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:E.166, A:D.168, A:D.168, B:H.175, B:T.176, B:T.176 GOL.3: 5 residues within 4Å: Chain B: K.128, G.129 Chain C: T.21, T.22, Y.38 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain C Hydrogen bonds: B:K.128, B:G.129, C:T.21, C:T.21

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, L. et al., An MPER antibody neutralizes HIV-1 using germline features shared among donors. Nat Commun (2019)

Release Date

2019-12-04

Peptides

germline PGZL1_gVmDmJ light chain: A
germline PGZL1_gVmDmJ heavy chain: B
Immunoglobulin G-binding protein G (DOMAIN III): C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
O

germline PGZL1_gVmDmJ light chain

germline PGZL1_gVmDmJ heavy chain

Immunoglobulin G-binding protein G (DOMAIN III)

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