SMTL ID : 5vfn.1

Crystal structure of BnSP-7 from Bothrops pauloensis complexed with cinnamic acid

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.39 Å

Oligo State

homo-dimer

Ligands

1 x HCI: HYDROCINNAMIC ACID(Covalent)

HCI.1: 6 residues within 4Å: Chain A: K.15, K.19, K.105, R.108 Chain B: K.19 Ligands: SO4.3 4 PLIP interactions: 1 interactions with chain B, 3 interactions with chain A Salt bridges: B:K.19, A:K.19, A:K.105 Hydrophobic interactions: A:K.105

2 x ME2: 1-ETHOXY-2-(2-METHOXYETHOXY)ETHANE(Non-covalent)

ME2.2: 5 residues within 4Å: Chain A: L.2, F.3, G.6, K.7, P.17 No protein-ligand interaction detected (PLIP) ME2.6: 8 residues within 4Å: Chain A: L.111 Chain B: L.2, L.5, G.6, I.9, P.17, A.18, G.29 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:L.111

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

SO4.3: 4 residues within 4Å: Chain A: K.15, N.16, K.19 Ligands: HCI.1 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.16 Salt bridges: A:K.15, A:K.19 SO4.4: 3 residues within 4Å: Chain A: G.32, R.33, K.52 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.33 Salt bridges: A:R.33, A:K.52 SO4.5: 1 residues within 4Å: Chain A: K.71 2 PLIP interactions: 2 interactions with chain A Water bridges: A:K.71 Salt bridges: A:K.71 SO4.7: 5 residues within 4Å: Chain B: G.14, K.15, N.16, K.19 Ligands: SO4.8 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.16 Salt bridges: B:K.15, B:K.19 SO4.8: 4 residues within 4Å: Chain B: K.15, K.19, R.108 Ligands: SO4.7 3 PLIP interactions: 3 interactions with chain B Salt bridges: B:K.15, B:K.19, B:R.108 SO4.9: 3 residues within 4Å: Chain B: G.32, R.33, K.52 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.33 Salt bridges: B:R.33, B:K.52

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

de Lima, L.F.G. et al., Structural studies with BnSP-7 reveal an atypical oligomeric conformation compared to phospholipases A2-like toxins. Biochimie (2017)

Release Date

2017-12-27

Peptides

Basic phospholipase A2 homolog BnSP-7: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Basic phospholipase A2 homolog BnSP-7

Related Entries With Identical Sequence