SMTL ID : 4pkw.1

Anthrax toxin lethal factor with bound small molecule inhibitor GM6001

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: H.425, H.429, E.474 Ligands: GM6.2, GOL.4 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.425, A:H.429, A:E.474, A:E.474

1 x GM6: 3-(N-HYDROXYCARBOXAMIDO)-2-ISOBUTYLPROPANOYL-TRP-METHYLAMIDE(Non-covalent)

GM6.2: 21 residues within 4Å: Chain A: D.67, F.68, V.392, H.393, S.394, K.395, G.396, L.397, K.412, G.413, V.414, L.416, G.422, H.425, E.426, H.429, Y.467, E.474, E.478 Ligands: ZN.1, GOL.4 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:D.67, A:F.68, A:V.392, A:L.416, A:Y.467 Hydrogen bonds: A:K.395, A:G.396, A:G.396, A:V.414, A:Y.467 Water bridges: A:D.67, A:D.67

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 5 residues within 4Å: Chain A: F.457, K.458, G.461, S.462, R.469 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.461, A:S.462, A:R.469 GOL.4: 8 residues within 4Å: Chain A: L.397, Y.398, P.400, E.426, H.429, E.474 Ligands: ZN.1, GM6.2 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.398

2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.5: 3 residues within 4Å: Chain A: K.34, I.39, Q.150 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.34, A:K.34 EDO.6: 4 residues within 4Å: Chain A: P.400, E.401, R.403, S.444 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.403, A:R.403, A:S.444

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Maize, K.M. et al., Anthrax toxin lethal factor domain 3 is highly mobile and responsive to ligand binding. Acta Crystallogr.,Sect.D (2014)

Release Date

2014-11-12

Peptides

Lethal factor: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Lethal factor

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