SMTL ID : 6spk.3 (2 other biounits)

A4V MUTANT OF HUMAN SOD1 WITH EBSELEN DERIVATIVE 6

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.77 Å

Oligo State

homo-dimer

Ligands

3 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.2: 5 residues within 4Å: Chain A: H.46, H.48, H.63, H.120 Ligands: SO4.5 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.46, A:H.48, A:H.63, A:H.120 ZN.9: 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

2 x LQN: 2-selanyl-~{N}-[3-[4-(trifluoromethyl)phenyl]phenyl]benzamide(Non-covalent)

LQN.3: 4 residues within 4Å: Chain A: S.25, G.108, C.111 Ligands: LQN.8 2 PLIP interactions: 2 interactions with chain A Water bridges: A:G.108 Halogen bonds: A:S.25 LQN.8: 5 residues within 4Å: Chain B: L.106, G.108, C.111, I.113 Ligands: LQN.3 No protein-ligand interaction detected (PLIP)

8 x SO4: SULFATE ION(Non-functional Binders)

SO4.4: 1 residues within 4Å: Chain A: K.128 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:K.128 SO4.5: 7 residues within 4Å: Chain A: H.48, H.63, H.120, T.137, G.141, R.143 Ligands: ZN.2 6 PLIP interactions: 6 interactions with chain A Water bridges: A:H.63, A:R.143 Salt bridges: A:H.48, A:H.63, A:H.120, A:R.143 SO4.6: 1 residues within 4Å: Chain A: K.91 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:K.91 SO4.7: 3 residues within 4Å: Chain A: T.58, S.142, R.143 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.143, A:R.143 SO4.10: 3 residues within 4Å: Chain B: T.58, S.142, R.143 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.143 SO4.11: 5 residues within 4Å: Chain B: H.48, H.63, H.120, T.137, R.143 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:T.137 Water bridges: B:R.143, B:R.143 Salt bridges: B:H.48, B:H.63, B:H.120, B:R.143 SO4.12: 3 residues within 4Å: Chain B: E.40, D.90, K.91 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:E.40, B:K.91 SO4.13: 1 residues within 4Å: Chain B: W.32 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:W.32

3 x NA: SODIUM ION(Non-functional Binders)

NA.14: 2 residues within 4Å: Chain B: G.41, L.42 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:L.42 NA.15: 1 residues within 4Å: Ligands: CL.17 No protein-ligand interaction detected (PLIP) NA.16: 2 residues within 4Å: Chain B: A.123 Ligands: CL.18 No protein-ligand interaction detected (PLIP)

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

CL.17: 1 residues within 4Å: Ligands: NA.15 Ligand excluded by PLIP CL.18: 4 residues within 4Å: Chain B: N.86, D.124, D.125 Ligands: NA.16 Ligand excluded by PLIP CL.19: 3 residues within 4Å: Chain B: G.73, P.74, K.75 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chantadul, V. et al., Ebselen as template for stabilization of A4V mutant dimer for motor neuron disease therapy. Commun Biol (2020)

Release Date

2020-03-18

Peptides

Superoxide dismutase [Cu-Zn]: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
I

B
J

Superoxide dismutase [Cu-Zn]

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