SMTL ID : 9j3p.3 (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

2 x ZN: ZINC ION

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

3 x SO4: SULFATE ION

SO4.3: 5 residues within 4Å: Chain A: G.143, T.144, R.145, W.163, Q.167 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:T.144, A:T.144, A:R.145, A:W.163, A:Q.167 Salt bridges: A:R.145 SO4.4: 3 residues within 4Å: Chain A: Q.158, N.161, R.174 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.158 Salt bridges: A:R.174 SO4.5: 3 residues within 4Å: Chain A: K.131, S.132, S.133 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.132, A:S.133 Salt bridges: A:K.131

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
C

Pigment epithelium-derived factor

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