SMTL ID : 6b83.1

Crystal structure of Myotoxin II from Bothrops moojeni complexed to Caproic acid

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-dimer

Ligands

1 x 6NA: HEXANOIC ACID(Non-covalent)

6NA.1: 7 residues within 4Å: Chain A: L.2, P.17, Y.21, C.28, G.29, C.44, H.47 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.2 Hydrogen bonds: A:G.29 Salt bridges: A:H.47

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

SO4.2: 3 residues within 4Å: Chain A: K.15, N.16, K.19 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.16 Water bridges: A:N.16, A:K.19 Salt bridges: A:K.15, A:K.19 SO4.3: 3 residues within 4Å: Chain A: G.32, R.33, K.52 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:R.33 Water bridges: A:G.32, A:R.33, A:R.33, A:K.52, A:K.52 Salt bridges: A:R.33, A:K.52 SO4.4: 4 residues within 4Å: Chain A: K.15, K.19, K.105, R.108 4 PLIP interactions: 4 interactions with chain A Salt bridges: A:K.15, A:K.19, A:K.105, A:R.108 SO4.5: 4 residues within 4Å: Chain B: K.15, N.16, K.19 Ligands: SO4.6 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:N.16 Water bridges: B:K.15 Salt bridges: B:K.15, B:K.19 SO4.6: 5 residues within 4Å: Chain B: K.15, K.19, K.105, R.108 Ligands: SO4.5 4 PLIP interactions: 4 interactions with chain B Salt bridges: B:K.15, B:K.19, B:K.105, B:R.108 SO4.7: 2 residues within 4Å: Chain B: G.32, R.33 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.33 Salt bridges: B:R.33 SO4.8: 2 residues within 4Å: Chain B: N.104, K.106 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.104, B:N.104 Salt bridges: B:K.106

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Salvador, G.H.M. et al., Structural evidence for a fatty acid-independent myotoxic mechanism for a phospholipase A2-like toxin. Biochim Biophys Acta Proteins Proteom (2018)

Release Date

2018-10-03

Peptides

Basic phospholipase A2 homolog 2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

Basic phospholipase A2 homolog 2

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