SMTL ID : 8rew.1

CryoEM structure of human GARP-lTGFbeta1 in complex with a Fab fragment derived from an activating antibody.

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-4-1-2-2-mer

Ligands

2 x NAG- NAG- BMA- MAN: alpha-D-mannopyranose-(1-6)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN.1: 7 residues within 4Å: Chain A: N.136, S.138, E.139, E.213, I.214 Chain F: Y.114, N.119 1 PLIP interactions: 1 interactions with chain F Hydrogen bonds: F:Y.114, F:Y.114 NAG-NAG-BMA-MAN.2: 8 residues within 4Å: Chain C: N.136, S.138, E.139, E.142, E.213, I.214 Chain I: Y.114, N.119 1 PLIP interactions: 1 interactions with chain I Hydrogen bonds: I:Y.114, I:N.119

1 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG.3: 6 residues within 4Å: Chain E: H.181, N.203, R.206, D.224, W.247, R.251 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:R.251

5 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose

NAG.4: 3 residues within 4Å: Chain A: Y.174, N.176, S.178 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.176 NAG.5: 2 residues within 4Å: Chain C: Y.174, N.176 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.176 NAG.6: 5 residues within 4Å: Chain C: E.75, L.78, A.79, N.82, R.85 4 PLIP interactions: 4 interactions with chain C Hydrophobic interactions: C:L.78, C:A.79 Hydrogen bonds: C:N.82, C:R.85 NAG.7: 9 residues within 4Å: Chain E: R.251, E.252, Y.269, N.271, S.273, N.274, N.319, D.321 Ligands: NAG.8 5 PLIP interactions: 5 interactions with chain E Hydrophobic interactions: E:Y.269 Hydrogen bonds: E:E.252, E:Y.269, E:S.273, E:D.321 NAG.8: 4 residues within 4Å: Chain E: D.321, F.343, N.345 Ligands: NAG.7 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lambert, F. et al., TGF-beta1 activating antibodies as novel immunotherapeutics for graft-versus-host disease. To Be Published

Release Date

2025-03-26

Peptides

Transforming growth factor beta-1: ABCD
Transforming growth factor beta activator LRRC32: E
hFab LHT-22, Light Chain: FI
hFab LHT-22, Heavy Chain: GH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

I
I

G
G

H
H

Transforming growth factor beta-1

Transforming growth factor beta activator LRRC32

hFab LHT-22, Light Chain

hFab LHT-22, Heavy Chain