SMTL ID : 6wts.1

CryoEM structure of the C. sordellii lethal toxin TcsL in complex with SEMA6A

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-1-mer

Ligands

3 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 3 residues within 4Å: Chain A: Y.416, N.418, H.419 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 8 residues within 4Å: Chain A: R.264, N.266, S.268, P.270, H.274, Y.276, A.385, N.391 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:P.270 NAG-NAG.3: 7 residues within 4Å: Chain B: R.264, N.266, P.270, H.274, Y.276, A.385, N.391 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:P.270

4 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.4: 1 residues within 4Å: Chain A: N.17 No protein-ligand interaction detected (PLIP) NAG.5: 3 residues within 4Å: Chain A: N.49, K.110, D.113 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.113 NAG.6: 3 residues within 4Å: Chain B: Y.416, N.418, H.419 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.418 NAG.7: 2 residues within 4Å: Chain B: N.49, D.113 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.49

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lee, H. et al., Recognition of Semaphorin Proteins by P. sordellii Lethal Toxin Reveals Principles of Receptor Specificity in Clostridial Toxins. Cell (2020)

Release Date

2020-07-08

Peptides

SEMA6A: AB
TcsL: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

SEMA6A

TcsL