SMTL ID : 6fbt.1

The X-ray Structure of Lytic Transglycosylase Slt from Pseudomonas aeruginosa in complex with the reaction product NAG-anhNAMpentapeptide

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

monomer

Ligands

1 x ALA- DGL- API- DAL- DAL: NAG-anhNAMpentapeptide(Non-covalent)

ALA-DGL-API-DAL-DAL.1: 15 residues within 4Å: Chain A: R.343, D.344, F.345, F.426, I.429, S.433, W.438, R.444, F.445, R.472, Q.580, N.584, S.587, Y.588 Ligands: AH0.8 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:F.426, A:Y.588 Hydrogen bonds: A:F.345, A:R.444, A:R.444, A:R.472, A:R.472, A:S.587

5 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.2: 6 residues within 4Å: Chain A: K.128, S.129, Q.130, D.135, F.138, R.155 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.128, A:Q.130, A:D.135 Salt bridges: A:R.155 PO4.3: 2 residues within 4Å: Chain A: E.225, R.263 2 PLIP interactions: 2 interactions with chain A Water bridges: A:K.226 Salt bridges: A:R.263 PO4.4: 3 residues within 4Å: Chain A: R.320, R.353, Y.609 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.320, A:R.320, A:R.353 PO4.5: 4 residues within 4Å: Chain A: E.456, N.459, R.460, R.523 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.459, A:R.460 Salt bridges: A:R.523 PO4.6: 4 residues within 4Å: Chain A: P.64, Q.65, W.68, R.398 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.398

1 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)

NAG.7: 9 residues within 4Å: Chain A: Q.473, E.474, A.481, S.483, Q.492, N.548, E.577, Y.581 Ligands: AH0.8 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:A.481 Hydrogen bonds: A:Q.473, A:E.474, A:Q.492, A:N.548, A:E.577, A:E.577

1 x AH0: 2-(2-ACETYLAMINO-4-HYDROXY-6,8-DIOXA-BICYCLO[3.2.1]OCT-3-YLOXY)-PROPIONIC ACID(Non-covalent)

AH0.8: 8 residues within 4Å: Chain A: F.426, Q.473, E.474, S.475, A.476 Ligands: ALA-DGL-API-DAL-DAL.1, ALA-DGL-API-DAL-DAL.1, NAG.7 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lee, M. et al., Exolytic and endolytic turnover of peptidoglycan by lytic transglycosylase Slt ofPseudomonas aeruginosa. Proc. Natl. Acad. Sci. U.S.A. (2018)

Release Date

2018-04-18

Peptides

Probable soluble lytic transglycosylase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Probable soluble lytic transglycosylase