SMTL ID : 4kuf.1

Crystal structure of the catalytic domain of botulinum neurotoxin BoNT/A C134 mutant with MTSEA modified Cys-165 causing stretch disorder

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 3 residues within 4Å: Chain A: H.243, H.247, E.282 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.243, A:H.247, A:E.282, A:E.282, H2O.9

4 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.2: 3 residues within 4Å: Chain A: H.59, T.129, V.132 No protein-ligand interaction detected (PLIP) DMS.3: 5 residues within 4Å: Chain A: N.258, R.261, F.302, Y.305, Y.306 No protein-ligand interaction detected (PLIP) DMS.4: 7 residues within 4Å: Chain A: K.395, I.396, N.397, M.431, N.432, F.433, T.434 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.434 DMS.5: 1 residues within 4Å: Chain A: K.360 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.360

1 x LMR: (2S)-2-hydroxybutanedioic acid(Non-covalent)

LMR.6: 7 residues within 4Å: Chain A: R.117, T.121, F.377, F.378, K.379, I.406, Y.407 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:T.121 Hydrogen bonds: A:R.117, A:F.377, A:K.379, A:K.379 Salt bridges: A:K.379

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.7: 6 residues within 4Å: Chain A: H.20, Y.119, S.120, T.121, D.122, R.125 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.119, A:S.120

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

EDO.8: 2 residues within 4Å: Chain A: K.355, D.359 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.355 EDO.9: 3 residues within 4Å: Chain A: S.130, Y.253, M.364 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.253 EDO.10: 4 residues within 4Å: Chain A: P.176, I.180, F.208, S.209 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.209, A:S.209 EDO.11: 2 residues within 4Å: Chain A: N.420, N.422 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.420, A:N.422 EDO.12: 4 residues within 4Å: Chain A: V.34, I.158, Q.159, P.160 No protein-ligand interaction detected (PLIP) EDO.13: 6 residues within 4Å: Chain A: X.185, Y.271, N.388, F.389, D.390, F.443 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.390, A:D.390, A:D.390 EDO.14: 4 residues within 4Å: Chain A: K.435, L.436, N.438 Ligands: EDO.15 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.435 EDO.15: 2 residues within 4Å: Chain A: L.436 Ligands: EDO.14 No protein-ligand interaction detected (PLIP) EDO.16: 2 residues within 4Å: Chain A: T.100, D.101 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.101

2 x NA: SODIUM ION(Non-functional Binders)

NA.17: 5 residues within 4Å: Chain A: F.286, D.372, V.375, N.382, R.383 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.372, A:N.382 Water bridges: A:K.376 NA.18: 2 residues within 4Å: Chain A: N.430, F.433 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.430 Water bridges: A:N.430

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Guitot, K. et al., Covalent modification of the active site cysteine stresses Clostridium botulinum neurotoxin A. To be Published

Release Date

2014-07-09

Peptides

Botulinum neurotoxin A light chain: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Botulinum neurotoxin A light chain

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