SMTL ID : 6ce2.1

Crystal structure of Myotoxin I (MjTX-I) from Bothrops moojeni complexed to inhibitor suramin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

homo-dimer

Ligands

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

PE4.1: 12 residues within 4Å: Chain A: L.2, G.6, K.7, I.9, P.17, Y.21, G.22, C.28, G.29, C.44 Chain B: Y.110 Ligands: SVR.3 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.27, A:G.29 PE4.2: 7 residues within 4Å: Chain A: L.111, F.114 Chain B: V.3, K.7, Q.11, Y.66, W.68 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.7, B:Q.11

1 x SVR: 8,8'-[CARBONYLBIS[IMINO-3,1-PHENYLENECARBONYLIMINO(4-METHYL-3,1-PHENYLENE)CARBONYLIMINO]]BIS-1,3,5-NAPHTHALENETRISULFON IC ACID(Non-covalent)

SVR.3: 27 residues within 4Å: Chain A: L.2, L.5, G.29, L.31, G.32, R.33, K.48, Y.51, K.60 Chain B: S.1, L.2, L.5, P.17, Y.21, G.22, G.29, L.31, G.32, R.33, K.48, Y.51, K.52, N.58, P.59, K.60, K.61 Ligands: PE4.1 29 PLIP interactions: 13 interactions with chain B, 16 interactions with chain A Hydrophobic interactions: B:L.2, B:K.48, B:Y.51, B:P.59, B:K.60, A:L.2, A:L.5, A:L.31, A:K.48, A:Y.51 Hydrogen bonds: B:R.33, B:N.58, A:G.29, A:G.32 Water bridges: B:K.48, A:L.31, A:R.33, A:R.33 Salt bridges: B:R.33, B:K.60, B:K.60, B:K.61, A:R.33, A:R.33, A:K.48, A:K.60, A:K.60 pi-Cation interactions: B:K.48, A:K.48

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Salvador, G.H.M. et al., Structural and functional characterization of suramin-bound MjTX-I from Bothrops moojeni suggests a particular myotoxic mechanism. Sci Rep (2018)

Release Date

2018-07-25

Peptides

Basic phospholipase A2 homolog 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Basic phospholipase A2 homolog 1