SMTL ID : 6ued.1

Apo Pseudomonas aeruginosa LpxD Structure

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.55 Å

Oligo State

homo-trimer

Ligands

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 11 residues within 4Å: Chain A: A.270, C.271, G.288, G.289, M.307 Chain B: M.255, G.273, S.275, G.291, L.292 Ligands: GOL.2 6 PLIP interactions: 3 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:S.275, B:L.292, A:A.270 Water bridges: B:G.273, A:A.270, A:G.288 GOL.2: 10 residues within 4Å: Chain A: C.271, G.288, G.289, M.307 Chain B: G.273, S.275, G.291, L.292, M.309 Ligands: GOL.1 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain A Water bridges: B:G.273, B:G.289, B:G.289, A:A.270, A:G.288 GOL.4: 11 residues within 4Å: Chain B: A.270, C.271, G.288, G.289, M.307 Chain C: M.255, G.273, S.275, G.291, L.292 Ligands: GOL.5 6 PLIP interactions: 3 interactions with chain B, 3 interactions with chain C Hydrogen bonds: B:A.270, C:S.275, C:L.292 Water bridges: B:A.270, B:G.288, C:G.273 GOL.5: 10 residues within 4Å: Chain B: C.271, G.288, G.289, M.307 Chain C: G.273, S.275, G.291, L.292, M.309 Ligands: GOL.4 5 PLIP interactions: 3 interactions with chain C, 2 interactions with chain B Water bridges: C:G.273, C:G.289, C:G.289, B:A.270, B:G.288 GOL.7: 11 residues within 4Å: Chain A: M.255, G.273, S.275, G.291, L.292 Chain C: A.270, C.271, G.288, G.289, M.307 Ligands: GOL.8 6 PLIP interactions: 3 interactions with chain C, 3 interactions with chain A Hydrogen bonds: C:A.270, A:S.275, A:L.292 Water bridges: C:A.270, C:G.288, A:G.273 GOL.8: 10 residues within 4Å: Chain A: G.273, S.275, G.291, L.292, M.309 Chain C: C.271, G.288, G.289, M.307 Ligands: GOL.7 5 PLIP interactions: 2 interactions with chain C, 3 interactions with chain A Water bridges: C:A.270, C:G.288, A:G.273, A:G.289, A:G.289

3 x MG: MAGNESIUM ION(Non-functional Binders)

MG.3: 2 residues within 4Å: Ligands: MG.6, MG.9 No protein-ligand interaction detected (PLIP) MG.6: 2 residues within 4Å: Ligands: MG.3, MG.9 No protein-ligand interaction detected (PLIP) MG.9: 2 residues within 4Å: Ligands: MG.3, MG.6 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kroeck, K.G. et al., Discovery of dual-activity small-molecule ligands of Pseudomonas aeruginosa LpxA and LpxD using SPR and X-ray crystallography. Sci Rep (2019)

Release Date

2019-11-13

Peptides

UDP-3-O-acylglucosamine N-acyltransferase: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

UDP-3-O-acylglucosamine N-acyltransferase