SMTL ID : 8gdt.1

Heligmosomoides polygyrus TGF-beta Mimic 6 Domain 3 (TGM6-D3) Bound to Human TGF-beta Type II Receptor Extracellular Domain

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

hetero-1-1-mer

Ligands

2 x GOL: GLYCEROL

GOL.1: 8 residues within 4Å: Chain A: C.25, D.26, N.27, Q.28, C.31, W.52, F.98, F.113 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.27, A:Q.28 GOL.5: 9 residues within 4Å: Chain B: R.28, R.51, E.64, V.66, Y.83, P.84, R.85, I.86, A.87 5 PLIP interactions: 4 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:R.28, B:R.28, B:R.51, B:E.64 Water bridges: A:E.42

3 x CAC: CACODYLATE ION

CAC.2: 8 residues within 4Å: Chain A: F.17, E.46, V.64, C.65, H.66, D.67, Y.72 Chain B: R.85 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:H.66 Water bridges: A:D.67, B:R.85 CAC.3: 5 residues within 4Å: Chain A: E.78, D.79, A.81, S.82, K.88 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:A.81 CAC.4: 10 residues within 4Å: Chain A: F.75, I.76, L.77, E.78, D.79, K.88, K.90, M.99, C.100, S.101 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.90, A:M.99, A:S.101

1 x NA: SODIUM ION

NA.6: 6 residues within 4Å: Chain B: R.28, H.29, R.50, E.64, F.65 Ligands: CL.7 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.50, B:F.65

1 x CL: CHLORIDE ION

CL.7: 5 residues within 4Å: Chain B: H.29, V.31, R.50, F.65 Ligands: NA.6 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

White, S.E. et al., Heligmosomoides polygyrus TGF-beta Mimic 6 Domain 3 (TGM6-D3) Bound to Human TGF-beta Type II Receptor Extracellular Domain. To Be Published

Release Date

2024-09-11

Peptides

TGF-beta receptor type-2: A
Transforming growth factor beta mimic 6: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

TGF-beta receptor type-2

Transforming growth factor beta mimic 6