SMTL ID : 4a7s.1

Structure of human I113T SOD1 mutant complexed with 5-Fluorouridine in the p21 space group

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.06 Å

Oligo State

homo-dimer

Ligands

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

CU.1: 5 residues within 4Å: Chain A: H.46, H.48, H.63, V.118, H.120 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.46, A:H.48, A:H.120 CU.8: 5 residues within 4Å: Chain B: H.46, H.48, H.63, V.118, H.120 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:H.46, B:H.48, B:H.120

2 x ZN: ZINC ION(Non-covalent)

ZN.2: 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.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

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

SO4.3: 3 residues within 4Å: Chain A: T.58, S.142, R.143 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:R.143, A:R.143 Water bridges: A:T.58, A:T.58, A:T.58, A:T.58, A:T.58, A:R.143, A:R.143 Salt bridges: A:R.143 SO4.4: 5 residues within 4Å: Chain A: E.133, T.137, N.139, A.140, G.141 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:E.133, A:T.137, A:A.140, A:G.141 Water bridges: A:N.139 SO4.7: 2 residues within 4Å: Chain B: N.131, E.132 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:E.132 Water bridges: B:N.131, B:E.133 SO4.10: 5 residues within 4Å: Chain B: E.133, T.137, N.139, A.140, G.141 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:T.137, B:N.139, B:A.140, B:G.141, B:G.141 SO4.11: 3 residues within 4Å: Chain B: T.58, S.142, R.143 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:T.58, B:R.143 Water bridges: B:T.58, B:G.141, B:R.143

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

ACT.5: 3 residues within 4Å: Chain A: E.49, R.115 Chain B: I.151 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.49, A:E.49 Water bridges: A:R.115 Salt bridges: A:R.115 ACT.12: 3 residues within 4Å: Chain B: Q.15, G.16, K.36 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:Q.15 Hydrogen bonds: B:Q.15 Water bridges: B:K.36 Salt bridges: B:K.36

2 x 5UD: 5-FLUOROURIDINE(Non-covalent)

5UD.6: 3 residues within 4Å: Chain A: K.30, W.32, S.98 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:K.30, A:S.98 Water bridges: A:G.33, A:G.33, A:S.98, A:S.98 pi-Stacking: A:W.32 Halogen bonds: A:K.30 5UD.13: 4 residues within 4Å: Chain B: E.21, K.30, W.32, S.98 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:E.21, B:W.32, B:S.98 Water bridges: B:G.33 pi-Stacking: B:W.32

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wright, G.S.A. et al., Ligand Binding and Aggregation of Pathogenic Sod1. Nat.Commun. (2013)

Release Date

2012-12-05

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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