SMTL ID : 2wyt.1

1.0 A resolution structure of L38V SOD1 mutant

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.00 Å

Oligo State

homo-dimer

Ligands

2 x CU: COPPER (II) ION(Non-covalent)

CU.1: 7 residues within 4Å: Chain A: H.46, H.48, H.63, V.118, H.120 Ligands: ZN.2, SO4.7 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.46, A:H.48, A:H.120 CU.11: 7 residues within 4Å: Chain B: H.46, H.48, H.63, V.118, H.120 Ligands: ZN.12, SO4.14 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:H.46, B:H.48, B:H.120

4 x ZN: ZINC ION(Non-covalent)

ZN.2: 7 residues within 4Å: Chain A: H.46, H.48, H.63, V.118, H.120 Ligands: CU.1, SO4.7 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.46, A:H.48, A:H.120, H2O.1 ZN.3: 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.12: 7 residues within 4Å: Chain B: H.46, H.48, H.63, V.118, H.120 Ligands: CU.11, SO4.14 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:H.46, B:H.48, B:H.120, H2O.12, H2O.13 ZN.13: 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

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

SO4.4: 3 residues within 4Å: Chain A: T.58, S.142, R.143 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.143, A:R.143 Water bridges: A:T.58, A:T.58, A:R.143 SO4.5: 6 residues within 4Å: Chain A: E.133, T.137, N.139, A.140, G.141 Ligands: SO4.7 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:T.137, A:T.137, A:N.139, A:A.140, A:G.141 Water bridges: A:N.139 SO4.7: 10 residues within 4Å: Chain A: H.46, H.48, H.63, H.120, T.137, G.141, R.143 Ligands: CU.1, ZN.2, SO4.5 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:H.46 Water bridges: A:H.63, A:H.63, A:H.63, A:G.141, A:R.143, A:R.143, A:R.143, A:R.143, A:R.143 Salt bridges: A:H.48, A:H.63, A:H.120, A:R.143 SO4.9: 6 residues within 4Å: Chain B: E.133, T.137, N.139, A.140, G.141 Ligands: SO4.14 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:T.137, B:T.137, B:G.141 Water bridges: B:N.139, B:N.139, B:G.141 SO4.10: 4 residues within 4Å: Chain B: C.57, T.58, S.142, R.143 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:T.58, B:R.143, B:R.143 SO4.14: 10 residues within 4Å: Chain B: H.46, H.48, H.63, H.120, T.137, G.141, R.143 Ligands: SO4.9, CU.11, ZN.12 13 PLIP interactions: 13 interactions with chain B Hydrogen bonds: B:H.46 Water bridges: B:H.63, B:H.63, B:R.143, B:R.143, B:R.143, B:R.143, B:R.143, B:R.143 Salt bridges: B:H.48, B:H.63, B:H.120, B:R.143

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

ACT.6: 6 residues within 4Å: Chain A: E.49, H.63, F.64, N.65, P.66, R.115 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.64, A:P.66 Hydrogen bonds: A:N.65

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

CL.8: 3 residues within 4Å: Chain A: P.74, K.75, L.126 Ligand excluded by PLIP CL.15: 3 residues within 4Å: Chain B: P.74, K.75, L.126 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Antonyuk, S.V. et al., Structural Discovery of Small Molecule Binding Sites in Cu-Zn Human Superoxide Dismutase Familial Amyotrophic Lateral Sclerosis Mutants Provides Insights for Lead Optimization. J.Med.Chem. (2010)

Release Date

2010-10-27

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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