SMTL ID : 4k06.1

Crystal structure of MTX-II from Bothrops brazili venom complexed with polyethylene glycol

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.08 Å

Oligo State

homo-dimer

Ligands

1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.1: 6 residues within 4Å: Chain A: L.2, G.6, P.17, A.18, Y.21, G.22 No protein-ligand interaction detected (PLIP)

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

SO4.2: 3 residues within 4Å: Chain A: T.72, I.94, R.97 4 PLIP interactions: 4 interactions with chain A Water bridges: A:K.90, A:K.90, A:R.97 Salt bridges: A:R.97 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: 2 residues within 4Å: Chain A: K.105, R.108 3 PLIP interactions: 3 interactions with chain A Salt bridges: A:K.15, A:K.105, A:R.108 SO4.6: 5 residues within 4Å: Chain B: G.14, K.15, N.16, S.20 Ligands: SO4.7 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.16, B:S.20 Water bridges: B:N.16 SO4.7: 3 residues within 4Å: Chain B: K.105, R.108 Ligands: SO4.6 5 PLIP interactions: 5 interactions with chain B Water bridges: B:K.105, B:R.108, B:R.108 Salt bridges: B:K.105, B:R.108

1 x PE4: 2-{2-[2-(2-{2-[2-(2-ETHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHOXY]-ETHOXY}-ETHANOL(Non-functional Binders)

PE4.5: 6 residues within 4Å: Chain B: K.7, L.10, Q.11, Y.66, W.68 Ligands: 7PE.8 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.7, B:Q.11

1 x 7PE: 2-(2-(2-(2-(2-(2-ETHOXYETHOXY)ETHOXY)ETHOXY)ETHOXY)ETHOXY)ETHANOL(Non-functional Binders)

7PE.8: 12 residues within 4Å: Chain A: V.30, P.113 Chain B: L.2, G.6, K.7, I.9, L.10, P.17, Y.21, G.22, G.29 Ligands: PE4.5 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:G.29 Water bridges: B:K.48

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fernandes, C.A.H. et al., Structural bases for a complete myotoxic mechanism: Crystal structures of two non-catalytic phospholipases A2-like from Bothrops brazili venom. Biochim.Biophys.Acta (2013)

Release Date

2013-11-13

Peptides

MTX-II: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

MTX-II

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