SMTL ID : 8bjd.1

Full length structure of LpMIP with bound inhibitor JK095

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-dimer

Ligands

2 x 9QN: (1~{S},5~{S},6~{R})-10-[3,5-bis(chloranyl)phenyl]sulfonyl-5-(hydroxymethyl)-3-(pyridin-2-ylmethyl)-3,10-diazabicyclo[4.3.1]decan-2-one(Non-covalent)

9QN.1: 12 residues within 4Å: Chain A: Y.126, F.136, D.137, F.148, Q.152, V.153, I.154, W.157, Y.180, R.183, I.189, F.197 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:D.137, A:F.148, A:W.157, A:W.157, A:Y.180, A:Y.180, A:I.189 Hydrogen bonds: A:Y.126, A:I.154, A:Y.180 pi-Cation interactions: A:W.157 9QN.6: 12 residues within 4Å: Chain B: Y.126, F.136, D.137, F.148, Q.152, V.153, I.154, W.157, Y.180, R.183, I.189, F.197 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:D.137, B:F.148, B:W.157, B:W.157, B:Y.180, B:Y.180, B:I.189 Hydrogen bonds: B:I.154 pi-Cation interactions: B:W.157

2 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.2: 1 residues within 4Å: Chain A: E.84 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:E.84 MES.7: 1 residues within 4Å: Chain B: E.84 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:E.84

4 x ZN: ZINC ION(Non-covalent)

ZN.3: 1 residues within 4Å: Chain A: D.137 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.137 ZN.4: 1 residues within 4Å: Chain A: E.159 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:E.159, A:E.159 ZN.8: 1 residues within 4Å: Chain B: D.137 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:D.137 ZN.9: 1 residues within 4Å: Chain B: E.159 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:E.159, B:E.159

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) GOL.10: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wiedemann, C. et al., Legionella pneumophila macrophage infectivity potentiator protein appendage domains modulate protein dynamics and inhibitor binding. Int.J.Biol.Macromol. (2023)

Release Date

2023-09-06

Peptides

Peptidyl-prolyl cis-trans isomerase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Peptidyl-prolyl cis-trans isomerase