SMTL ID : 6q7w.1

Crystal structure of PqsR (MvfR) ligand-binding domain in complex with compound 20

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.82 Å

Oligo State

homo-dimer

Ligands

2 x HLQ: ~{N}4-[3-(4-fluorophenyl)propyl]-6-(trifluoromethyl)pyridine-2,4-diamine(Non-covalent)

HLQ.1: 19 residues within 4Å: Chain A: A.12, P.39, I.59, A.78, V.80, I.96, L.99, Q.104, L.117, L.118, V.121, F.131, W.144, I.146, A.147, P.148, Y.168, I.173, T.175 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.118, A:I.146, A:I.146, A:I.173 Hydrogen bonds: A:L.118 Water bridges: A:Q.104 pi-Stacking: A:Y.168 HLQ.4: 19 residues within 4Å: Chain B: A.12, P.39, I.59, A.78, V.80, I.96, L.99, Q.104, L.117, L.118, V.121, F.131, W.144, I.146, A.147, P.148, Y.168, I.173, T.175 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:L.118, B:I.146, B:I.146, B:I.173 Hydrogen bonds: B:L.118 Water bridges: B:Q.104 pi-Stacking: B:Y.168

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 6 residues within 4Å: Chain A: H.86, P.87, Y.102, R.103, K.124, V.142 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.103, A:R.103, A:K.124 GOL.3: 4 residues within 4Å: Chain A: D.132, Y.150, F.151, R.155 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.155, A:R.155 GOL.5: 6 residues within 4Å: Chain B: H.86, P.87, Y.102, R.103, K.124, V.142 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.103, B:R.103, B:K.124 GOL.6: 4 residues within 4Å: Chain B: D.132, Y.150, F.151, R.155 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.155, B:R.155

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zender, M. et al., Flexible Fragment Growing Boosts Potency of Quorum-Sensing Inhibitors against Pseudomonas aeruginosa Virulence. Chemmedchem (2020)

Release Date

2019-11-20

Peptides

Transcriptional regulator MvfR: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Transcriptional regulator MvfR

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