SMTL ID : 6pyc.1

Structure of kappa-on-heavy (KoH) antibody Fab bound to the cardiac hormone marinobufagenin

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.60 Å

Oligo State

hetero-1-1-1-1-mer

Ligands

2 x P4S: (3beta,5beta,14alpha,15beta)-3,5-dihydroxy-14,15-epoxybufa-20,22-dienolide(Non-covalent)

P4S.1: 7 residues within 4Å: Chain A: Y.97, Y.98, S.99, I.100, W.102 Chain B: Y.33 Ligands: P4S.2 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:I.100 Hydrogen bonds: A:Y.98 P4S.2: 11 residues within 4Å: Chain A: A.40, L.52, W.56, Q.95, Y.97, W.102 Chain B: Q.90, Y.92, Y.97, F.99 Ligands: P4S.1 11 PLIP interactions: 8 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:A.40, A:L.52, A:W.56, A:Y.97, A:W.102, A:W.102, B:Y.97, B:Y.97 Hydrogen bonds: A:Q.95, B:Q.90 Salt bridges: A:K.36

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

SO4.3: 6 residues within 4Å: Chain C: Y.32, Q.98, G.100, N.101, Y.102, V.103 6 PLIP interactions: 6 interactions with chain C Hydrogen bonds: C:Y.32, C:Y.32, C:Q.98, C:N.101, C:Y.102, C:V.103

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Macdonald, L.E. et al., Kappa-on-Heavy (KoH) bodies are a distinct class of fully-human antibody-like therapeutic agents with antigen-binding properties. Proc.Natl.Acad.Sci.USA (2020)

Release Date

2019-12-25

Peptides

KoH body Fab heavy chain: A
KoH body Fab light chain: B
anti-kappa antibody Fab heavy chain: C
anti-kappa antibody Fab light chain: D

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
H

B
L

C
A

D
B

KoH body Fab heavy chain

KoH body Fab light chain

anti-kappa antibody Fab heavy chain

anti-kappa antibody Fab light chain