SMTL ID : 8szm.1 (1 other biounit)

Crystal structure of E. coli ClpP protease in complex with phosphine oxide compound ACP6-12

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.35 Å

Oligo State

homo-14-mer

Ligands

1 x X3O: 2-{bis[5-(trifluoromethyl)pyridin-2-yl]phosphoryl}-2-methyl-N-(2-{[2-(trifluoromethyl)phenyl]sulfanyl}ethyl)propanamide

X3O.1: 13 residues within 4Å: Chain H: L.62, F.63, A.66, F.96 Chain N: R.36, E.40, V.42, Y.74, Y.76, F.126, L.128, L.203, R.206 10 PLIP interactions: 8 interactions with chain N, 2 interactions with chain H Hydrophobic interactions: N:V.42, N:Y.74, N:L.203, H:A.66, H:F.96 Hydrogen bonds: N:Y.76, N:R.206, N:R.206 pi-Stacking: N:Y.76 Halogen bonds: N:R.36

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lin, F. et al., Structure-Based Design and Development of Phosphine Oxides as a Novel Chemotype for Antibiotics that Dysregulate Bacterial ClpP Proteases. J.Med.Chem. (2024)

Release Date

2024-09-18

Peptides

ATP-dependent Clp protease proteolytic subunit: ABCDEFGHIJKLMN

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
H

B
I

C
J

D
K

E
L

F
M

G
N

H
A

I
B

J
C

K
D

L
E

M
F

N
G

ATP-dependent Clp protease proteolytic subunit

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