SMTL ID : 8t88.1

FphE, Staphylococcus aureus fluorophosphonate-binding serine hydrolases E, Oxadiazolone JJ004 bound

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.54 Å

Oligo State

homo-dimer

Ligands

2 x YW0: methyl 2-formyl-2-[4-(undec-10-ynamido)phenyl]hydrazine-1-carboxylate(Covalent)

YW0.1: 23 residues within 4Å: Chain A: G.30, A.31, S.106, S.107, P.132 Chain B: L.159, E.160, M.163, K.164, F.166, L.170, I.172, M.180, S.181, P.183, Y.194, T.197, W.200, I.205, T.209, P.238, H.260, L.261 13 PLIP interactions: 7 interactions with chain B, 6 interactions with chain A Hydrophobic interactions: B:L.159, B:E.160, B:Y.194, B:T.197, B:W.200, B:W.200, A:A.31, A:A.31 Water bridges: B:W.200, A:N.32, A:S.107, A:S.107 Hydrogen bonds: A:A.31 YW0.3: 22 residues within 4Å: Chain A: T.156, L.159, E.160, M.163, F.166, L.170, I.172, M.180, S.181, Q.193, Y.194, R.196, T.197, W.200, I.205, T.209, H.260 Chain B: G.30, A.31, S.106, S.107, P.132 17 PLIP interactions: 12 interactions with chain A, 5 interactions with chain B Hydrophobic interactions: A:T.156, A:L.159, A:L.159, A:E.160, A:F.166, A:Y.194, A:Y.194, A:T.197, A:W.200, A:W.200, B:A.31 Hydrogen bonds: A:R.196, B:A.31 Water bridges: A:W.200, B:N.32, B:S.107, B:S.107

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 1 residues within 4Å: Chain A: N.276 No protein-ligand interaction detected (PLIP) MG.4: 1 residues within 4Å: Chain B: H.152 4 PLIP interactions: 1 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:H.152, H2O.11, H2O.12, H2O.14

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jo, J. et al., Development of Oxadiazolone Activity-Based Probes Targeting FphE for Specific Detection of Staphylococcus aureus Infections. J.Am.Chem.Soc. (2024)

Release Date

2024-03-06

Peptides

Fluorophosphonate-binding serine hydrolase E: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Fluorophosphonate-binding serine hydrolase E

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