SMTL ID : 6euu.1

The Transcriptional Regulator PrfA from Listeria Monocytogenes in complex with a ring-fused 2-pyridone (KSK29)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

homo-dimer

Ligands

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

NA.1: 3 residues within 4Å: Chain A: F.31, E.38, S.73 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.73, A:S.73 NA.5: 4 residues within 4Å: Chain B: N.32, Q.33, G.83, Y.85 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:G.83

4 x IPA: ISOPROPYL ALCOHOL(Non-functional Binders)

IPA.2: 6 residues within 4Å: Chain A: Y.65, I.71, M.72, V.82, Q.125 Chain B: V.126 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:Y.65, A:Q.125 Hydrophobic interactions: B:V.126 IPA.3: 2 residues within 4Å: Chain A: Y.64, Q.125 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:Q.125 Hydrogen bonds: A:Y.64 IPA.6: 4 residues within 4Å: Chain B: Q.63, Y.64, Q.125, Y.128 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:Y.128, B:Y.128 Hydrogen bonds: B:Y.64 IPA.7: 5 residues within 4Å: Chain A: V.126 Chain B: Y.65, I.71, M.72, Q.125 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Y.65, B:Q.125

1 x K29: (3~{R})-8-cyclopropyl-5-oxidanylidene-7-(quinolin-3-ylmethyl)-2,3-dihydro-[1,3]thiazolo[3,2-a]pyridine-3-carboxylic acid(Non-covalent)

K29.4: 9 residues within 4Å: Chain A: K.132, F.133, F.136, S.144 Chain B: L.62, Q.63, K.132, F.136, S.144 9 PLIP interactions: 4 interactions with chain B, 5 interactions with chain A Hydrophobic interactions: B:K.132, B:K.132, A:F.133, A:F.133, A:F.136, A:F.136 pi-Stacking: B:F.133, B:F.133, A:F.133

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kulen, M. et al., Structure-Based Design of Inhibitors Targeting PrfA, the Master Virulence Regulator of Listeria monocytogenes. J. Med. Chem. (2018)

Release Date

2018-05-02

Peptides

Listeriolysin positive regulatory factor A: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Listeriolysin positive regulatory factor A

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