SMTL ID : 8imd.1

Crystal structure of Cu/Zn Superoxide dismutase from Paenibacillus lautus

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.45 Å

Oligo State

homo-dimer

Ligands

2 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.1: 10 residues within 4Å: Chain A: I.46, G.49, T.50, T.51 Chain B: N.36, Q.37, R.56, W.68, Q.70, I.75 7 PLIP interactions: 4 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:N.36, A:G.49, A:T.51, A:T.51 Water bridges: B:W.68 Salt bridges: B:R.56 pi-Cation interactions: B:W.68 MES.4: 8 residues within 4Å: Chain A: T.39, V.55, R.56, W.68, Q.70 Chain B: G.49, T.50, T.51 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:T.51, B:T.51 Salt bridges: A:R.56

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

CU.2: 4 residues within 4Å: Chain A: H.121, H.123, H.138, H.197 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.121, A:H.123, A:H.138, A:H.197 CU.5: 4 residues within 4Å: Chain B: H.121, H.123, H.138, H.197 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:H.121, B:H.123, B:H.197

2 x ZN: ZINC ION(Non-covalent)

ZN.3: 5 residues within 4Å: Chain A: H.138, H.146, H.155, D.158, P.207 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.138, A:H.146, A:H.155, A:D.158 ZN.6: 5 residues within 4Å: Chain B: H.138, H.146, H.155, D.158, P.207 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:H.138, B:H.146, B:H.155, B:D.158, B:D.158

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Furukawa, Y. et al., Characterization of a novel cysteine-less Cu/Zn-superoxide dismutase in Paenibacillus lautus missing a conserved disulfide bond. J.Biol.Chem. (2023)

Release Date

2024-01-17

Peptides

Cu/Zn-Superoxide dismutase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Cu/Zn-Superoxide dismutase