SMTL ID : 7zqs.1

Cryo-EM Structure of Human Transferrin Receptor 1 bound to DNA Aptamer

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

homo-dimer

Ligands

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

NAG-NAG.1: 5 residues within 4Å: Chain B: F.187, N.317, F.321, E.383 Chain D: W.641 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:F.187 NAG-NAG.2: 2 residues within 4Å: Chain B: N.727, L.730 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 5 residues within 4Å: Chain B: W.641 Chain D: F.187, N.317, F.321, E.383 1 PLIP interactions: 1 interactions with chain D Hydrophobic interactions: D:F.187 NAG-NAG.4: 2 residues within 4Å: Chain D: N.727, L.730 No protein-ligand interaction detected (PLIP)

4 x MG: MAGNESIUM ION(Non-functional Binders)

MG.5: 3 residues within 4Å: Chain A: G.34, A.35, G.36 No protein-ligand interaction detected (PLIP) MG.6: 1 residues within 4Å: Chain A: G.28 No protein-ligand interaction detected (PLIP) MG.8: 3 residues within 4Å: Chain C: G.34, A.35, G.36 No protein-ligand interaction detected (PLIP) MG.9: 1 residues within 4Å: Chain C: G.28 No protein-ligand interaction detected (PLIP)

2 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.7: 1 residues within 4Å: Chain B: N.251 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.251 NAG.10: 1 residues within 4Å: Chain D: N.251 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:N.251

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cheng, E.L. et al., Discovery of a Transferrin Receptor 1-Binding Aptamer and Its Application in Cancer Cell Depletion for Adoptive T-Cell Therapy Manufacturing. J.Am.Chem.Soc. (2022)

Release Date

2022-08-17

Peptides

Transferrin receptor protein 1: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

B
B

D
D

Transferrin receptor protein 1