SMTL ID : 7e6p.1

Fab-amyloid beta fragment complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

hetero-1-1-1-mer

Ligands

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

EDO.1: 6 residues within 4Å: Chain A: Q.43, K.51, P.65, F.68, E.87, D.88 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.43, A:E.87, A:D.88 EDO.2: 6 residues within 4Å: Chain A: K.36, N.37, F.56, A.57, S.58, G.72 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.37, A:N.37, A:S.58, A:G.72 Water bridges: A:F.56, A:S.58 EDO.5: 8 residues within 4Å: Chain B: T.116, V.117, S.118, A.120, F.152, L.176, D.179, Y.181 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.118, B:Y.181

2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.3: 9 residues within 4Å: Chain A: N.144, T.170, D.171, D.173, T.178, Y.179, S.180 Chain B: V.169, H.170 6 PLIP interactions: 2 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:V.169, B:H.170, A:N.144, A:T.170, A:D.173, A:T.178 PEG.4: 6 residues within 4Å: Chain A: S.122, I.123, F.124, K.213 Chain B: P.132, T.143 6 PLIP interactions: 4 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:I.123, A:K.213 Hydrogen bonds: A:S.122, A:I.123, B:T.143, B:T.143

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kageyama, Y. et al., Characterization of a Conformation-Restricted Amyloid beta Peptide and Immunoreactivity of Its Antibody in Human AD brain. Acs Chem Neurosci (2021)

Release Date

2022-01-05

Peptides

Fab Heavy chain: A
Fab Light chain: B
Amyloid beta fragment with an intramolecular disulfide bond at positions 17 and 28: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
L

B
H

C
A

Fab Heavy chain

Fab Light chain

Amyloid beta fragment with an intramolecular disulfide bond at positions 17 and 28

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