SMTL ID : 9j3p.5 (4 other biounits)

Human Pigment Epithelium-Derived Factor with Zinc Ions Crystallized in P2(1)2(1)2(1) Space Group

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

monomer

Ligands

3 x ZN: ZINC ION

ZN.1: 5 residues within 4Å: Chain A: D.24, P.25, F.26, H.279, R.283 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.24, A:D.24, A:H.279, H2O.1 ZN.2: 1 residues within 4Å: Chain A: H.361 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.361, H2O.2 ZN.3: 1 residues within 4Å: Chain A: H.85 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.85, H2O.2, H2O.3

1 x SO4: SULFATE ION

SO4.4: 4 residues within 4Å: Chain A: R.121, R.145, W.163, Q.167 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:W.163, A:Q.167

1 x PG0: 2-(2-METHOXYETHOXY)ETHANOL

PG0.5: 6 residues within 4Å: Chain A: N.57, K.298, L.299, S.300, G.397, P.398 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.57, A:P.398, A:P.398

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chistyakov, D.V. et al., Zinc-mediated mechanism of neurodegeneration in glaucoma: a role of pigment epithelium-derived factor. To Be Published

Release Date

2025-06-18

Peptides

Pigment epithelium-derived factor: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

Pigment epithelium-derived factor

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