SMTL ID : 7t8f.1

G93A mutant of human SOD1 bound with Ebselen in P21 space group

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

homo-dimer

Ligands

4 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: H.63, H.71, H.80, D.83, K.136 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:H.63, A:H.71, A:H.80, A:D.83, A:D.83 ZN.4: 5 residues within 4Å: Chain A: H.46, H.48, H.63, V.118, H.120 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.46, A:H.48, A:H.120, H2O.2 ZN.5: 5 residues within 4Å: Chain B: H.63, H.71, H.80, D.83, K.136 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:H.63, B:H.71, B:H.80, B:D.83, B:D.83 ZN.7: 5 residues within 4Å: Chain B: H.46, H.48, H.63, V.118, H.120 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.46, B:H.48, B:H.120, H2O.7

1 x ACT: ACETATE ION(Non-functional Binders)

ACT.2: 5 residues within 4Å: Chain A: E.133, T.137, N.139, A.140, G.141 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.133, A:T.137, A:G.141

2 x 9JT: N-phenyl-2-selanylbenzamide(Non-covalent)

9JT.3: 10 residues within 4Å: Chain A: L.106, S.107, G.108, D.109, C.111, I.113, G.114 Chain B: I.113, I.151 Ligands: 9JT.6 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:I.113, B:I.113, B:I.151 Hydrogen bonds: A:G.108 9JT.6: 10 residues within 4Å: Chain A: G.108, I.113, I.151 Chain B: L.106, S.107, G.108, C.111, I.113, G.114 Ligands: 9JT.3 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:I.113 Water bridges: B:G.108, B:G.108

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Watanabe, S. et al., Ebselen analogues delay disease onset and its course in fALS by on-target SOD-1 engagement. Sci Rep (2024)

Release Date

2023-01-25

Peptides

Superoxide dismutase [Cu-Zn]: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
F

Superoxide dismutase [Cu-Zn]

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