SMTL ID : 8a2l.1

X-ray structure of TRIL-encapsulated human heavy chain ferritin

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

monomer

Ligands

5 x CL: CHLORIDE ION(Non-functional Binders)

CL.1: 4 residues within 4Å: Chain A: R.9, Q.10, N.11, Y.12 Ligand excluded by PLIP CL.2: 2 residues within 4Å: Chain A: N.139, K.143 Ligand excluded by PLIP CL.3: 2 residues within 4Å: Chain A: H.13, Q.14 Ligand excluded by PLIP CL.4: 2 residues within 4Å: Chain A: H.173 Ligands: FE.12 Ligand excluded by PLIP CL.5: 2 residues within 4Å: Chain A: Q.83, D.84 Ligand excluded by PLIP

6 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)

MG.6: 1 residues within 4Å: Chain A: E.134 No protein-ligand interaction detected (PLIP) MG.7: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.8: 1 residues within 4Å: Chain A: D.131 No protein-ligand interaction detected (PLIP) MG.9: 1 residues within 4Å: Chain A: D.42 No protein-ligand interaction detected (PLIP) MG.10: 5 residues within 4Å: Chain A: Q.58, E.61, E.62, E.107, E.140 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:E.61, A:E.107, H2O.1, H2O.2, H2O.4 MG.13: 2 residues within 4Å: Chain A: D.131, E.134 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.131

2 x FE: FE (III) ION(Non-covalent)

FE.11: 4 residues within 4Å: Chain A: E.27, E.62, H.65, Q.141 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.27, A:E.62, A:H.65, H2O.1, H2O.1 FE.12: 2 residues within 4Å: Chain A: H.173 Ligands: CL.4 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.173, H2O.5

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lucignano, R. et al., A new and efficient procedure to load bioactive molecules within the human heavy-chain ferritin nanocage. Front Mol Biosci (2023)

Release Date

2023-02-08

Peptides

Ferritin heavy chain: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
AAA

Ferritin heavy chain

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