SMTL ID : 2c9s.1

1.24 Angstroms resolution structure of Zn-Zn Human Superoxide dismutase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.24 Å

Oligo State

homo-dimer

Ligands

6 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: H.46, H.48, H.63, H.120 Ligands: SO4.7 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.46, A:H.48, A:H.120 ZN.2: 4 residues within 4Å: Chain A: H.63, H.71, H.80, D.83 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.3: 4 residues within 4Å: Chain A: S.142, R.143, L.144 Ligands: SO4.9 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:S.142, A:R.143, H2O.9, H2O.10 ZN.12: 5 residues within 4Å: Chain B: H.46, H.48, H.63, H.120 Ligands: SO4.10 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:H.46, B:H.48, B:H.120 ZN.13: 4 residues within 4Å: Chain B: H.63, H.71, H.80, D.83 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.15: 4 residues within 4Å: Chain B: S.142, R.143, L.144 Ligands: SO4.11 2 PLIP interactions: 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:R.143, H2O.20

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

ACT.4: 2 residues within 4Å: Chain A: E.132 Ligands: ACT.5 No protein-ligand interaction detected (PLIP) ACT.5: 3 residues within 4Å: Chain A: N.131, E.132 Ligands: ACT.4 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:N.131 Hydrogen bonds: A:E.132 Water bridges: A:E.133 ACT.14: 4 residues within 4Å: Chain B: P.74, G.85, N.86, L.126 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:P.74, B:L.126 Hydrogen bonds: B:N.86, B:N.86

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

SO4.6: 2 residues within 4Å: Chain A: L.67, R.69 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.77 Water bridges: A:L.67, A:R.69 Salt bridges: A:R.69 SO4.7: 7 residues within 4Å: Chain A: H.46, H.48, H.63, H.120, T.137, R.143 Ligands: ZN.1 10 PLIP interactions: 10 interactions with chain A Water bridges: A:T.137, A:T.137, A:R.143, A:R.143, A:R.143 Salt bridges: A:H.46, A:H.48, A:H.63, A:H.120, A:R.143 SO4.8: 4 residues within 4Å: Chain A: E.133, N.139, A.140, G.141 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.139, A:G.141 Water bridges: A:E.133, A:E.133, A:E.133, A:T.137 SO4.9: 4 residues within 4Å: Chain A: T.58, S.142, R.143 Ligands: ZN.3 5 PLIP interactions: 5 interactions with chain A Water bridges: A:S.142, A:R.143, A:R.143, A:R.143, A:R.143 SO4.10: 7 residues within 4Å: Chain B: H.46, H.48, H.63, H.120, T.137, R.143 Ligands: ZN.12 9 PLIP interactions: 9 interactions with chain B Water bridges: B:T.137, B:R.143, B:R.143, B:R.143 Salt bridges: B:H.46, B:H.48, B:H.63, B:H.120, B:R.143 SO4.11: 4 residues within 4Å: Chain B: T.58, S.142, R.143 Ligands: ZN.15 2 PLIP interactions: 2 interactions with chain B Water bridges: B:R.143 Salt bridges: B:R.143

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Strange, R.W. et al., Variable Metallation of Human Superoxide Dismutase: Atomic Resolution Crystal Structures of Cu-Zn, Zn-Zn and as-Isolated Wild-Type Enzymes. J.Mol.Biol. (2006)

Release Date

2005-12-15

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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