SMTL ID : 8i09.1 (2 other biounits)

Crystal structure of serine acetyltransferase from Salmonella typhimurium complexed with butyl gallate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-hexamer

Ligands

6 x CYS: CYSTEINE(Non-covalent)

CYS.1: 9 residues within 4Å: Chain A: G.173, L.190, G.191, R.200, H.201 Chain C: D.100, P.101, D.165, H.166 4 PLIP interactions: 1 interactions with chain C, 3 interactions with chain A Hydrogen bonds: C:H.166 Water bridges: A:R.200 Salt bridges: A:R.200, A:H.201 CYS.2: 6 residues within 4Å: Chain A: D.100, P.101, D.165, H.166 Chain B: R.200, H.201 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Salt bridges: B:R.200, B:H.201 Hydrogen bonds: A:D.100 CYS.5: 6 residues within 4Å: Chain B: D.100, P.101, D.165, H.166 Chain C: R.200, H.201 3 PLIP interactions: 2 interactions with chain C, 1 interactions with chain B Salt bridges: C:R.200, C:H.201 Hydrogen bonds: B:D.100 CYS.8: 9 residues within 4Å: Chain D: G.173, L.190, G.191, R.200, H.201 Chain F: D.100, P.101, D.165, H.166 4 PLIP interactions: 1 interactions with chain F, 3 interactions with chain D Hydrogen bonds: F:H.166 Water bridges: D:R.200 Salt bridges: D:R.200, D:H.201 CYS.9: 6 residues within 4Å: Chain D: D.100, P.101, D.165, H.166 Chain E: R.200, H.201 3 PLIP interactions: 1 interactions with chain D, 2 interactions with chain E Hydrogen bonds: D:D.100 Salt bridges: E:R.200, E:H.201 CYS.12: 6 residues within 4Å: Chain E: D.100, P.101, D.165, H.166 Chain F: R.200, H.201 3 PLIP interactions: 2 interactions with chain F, 1 interactions with chain E Salt bridges: F:R.200, F:H.201 Hydrogen bonds: E:D.100

6 x NF0: butyl 3,4,5-tris(oxidanyl)benzoate(Non-covalent)

NF0.3: 15 residues within 4Å: Chain A: L.185, M.209, I.210, G.211, K.227, I.228, G.229, A.230, A.245 Chain B: G.192, T.193, G.194, L.217, V.233, L.235 9 PLIP interactions: 5 interactions with chain A, 4 interactions with chain B Hydrophobic interactions: A:A.245, B:L.217, B:V.233, B:L.235 Hydrogen bonds: A:M.209 Water bridges: A:A.212, B:G.192 Salt bridges: A:K.227 pi-Cation interactions: A:K.227 NF0.6: 14 residues within 4Å: Chain B: L.185, M.209, I.210, G.211, K.227, I.228, G.229, A.230, A.245 Chain C: G.192, T.193, G.194, L.217, L.235 9 PLIP interactions: 4 interactions with chain C, 5 interactions with chain B Hydrophobic interactions: C:L.217, C:L.235, B:A.245 Hydrogen bonds: C:G.194, B:I.228 Water bridges: C:G.192, B:A.212 Salt bridges: B:K.227 pi-Cation interactions: B:K.227 NF0.7: 14 residues within 4Å: Chain A: G.192, T.193, G.194, L.217, L.235 Chain C: L.185, M.209, I.210, G.211, K.227, I.228, G.229, A.230, A.245 9 PLIP interactions: 6 interactions with chain C, 3 interactions with chain A Hydrophobic interactions: C:K.227, C:A.245, A:L.217, A:L.235 Hydrogen bonds: C:I.228 Water bridges: C:A.212, A:G.192 Salt bridges: C:K.227 pi-Cation interactions: C:K.227 NF0.10: 15 residues within 4Å: Chain D: L.185, M.209, I.210, G.211, K.227, I.228, G.229, A.230, A.245 Chain E: G.192, T.193, G.194, L.217, V.233, L.235 9 PLIP interactions: 4 interactions with chain E, 5 interactions with chain D Hydrophobic interactions: E:L.217, E:V.233, E:L.235, D:A.245 Water bridges: E:G.192, D:A.212 Hydrogen bonds: D:M.209 Salt bridges: D:K.227 pi-Cation interactions: D:K.227 NF0.13: 14 residues within 4Å: Chain E: L.185, M.209, I.210, G.211, K.227, I.228, G.229, A.230, A.245 Chain F: G.192, T.193, G.194, L.217, L.235 9 PLIP interactions: 5 interactions with chain E, 4 interactions with chain F Hydrophobic interactions: E:A.245, F:L.217, F:L.235 Hydrogen bonds: E:I.228, F:G.194 Water bridges: E:A.212, F:G.192 Salt bridges: E:K.227 pi-Cation interactions: E:K.227 NF0.14: 14 residues within 4Å: Chain D: G.192, T.193, G.194, L.217, L.235 Chain F: L.185, M.209, I.210, G.211, K.227, I.228, G.229, A.230, A.245 9 PLIP interactions: 6 interactions with chain F, 3 interactions with chain D Hydrophobic interactions: F:K.227, F:A.245, D:L.217, D:L.235 Hydrogen bonds: F:I.228 Water bridges: F:A.212, D:G.192 Salt bridges: F:K.227 pi-Cation interactions: F:K.227

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.4: 7 residues within 4Å: Chain A: S.187, K.215 Chain B: S.187, K.215 Chain C: S.187, G.213, K.215 8 PLIP interactions: 2 interactions with chain A, 3 interactions with chain C, 3 interactions with chain B Hydrogen bonds: A:S.187, C:S.187, C:S.187, B:S.187, B:S.187 Salt bridges: A:K.215, C:K.215, B:K.215 PO4.11: 7 residues within 4Å: Chain D: S.187, K.215 Chain E: S.187, K.215 Chain F: S.187, G.213, K.215 8 PLIP interactions: 2 interactions with chain D, 3 interactions with chain E, 3 interactions with chain F Hydrogen bonds: D:S.187, E:S.187, E:S.187, F:S.187, F:S.187 Salt bridges: D:K.215, E:K.215, F:K.215

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Toyomoto, T. et al., Alkyl gallates inhibit serine O -acetyltransferase in bacteria and enhance susceptibility of drug-resistant Gram-negative bacteria to antibiotics. Front Microbiol (2023)

Release Date

2023-11-22

Peptides

Serine acetyltransferase: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
A

E
B

F
C

Serine acetyltransferase

Related Entries With Identical Sequence