SMTL ID : 7l03.1

The aminoacrylate form of the wild-type Salmonella typhimurium Tryptophan Synthase in complex with inhibitor N-(4'-trifluoromethoxybenzenesulfonyl)-2-amino-1-ethylphosphate (F9F) at the enzyme alpha-site and sodium ion at the metal coordination site at 1.60 Angstrom resolution. Three water molecules are close to the amynoacrylate at the enzyme beta-site

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

hetero-1-1-mer

Ligands

1 x F9F: 2-({[4-(TRIFLUOROMETHOXY)PHENYL]SULFONYL}AMINO)ETHYL DIHYDROGEN PHOSPHATE(Non-covalent)

F9F.1: 19 residues within 4Å: Chain A: F.22, E.49, A.59, I.64, L.100, L.127, A.129, I.153, Y.175, L.177, T.183, G.184, F.212, G.213, I.232, S.233, G.234, S.235 Chain B: P.18 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:L.100, A:L.100, A:L.127, A:Y.175, A:T.183 Hydrogen bonds: A:R.179, A:G.184, A:F.212, A:G.213, A:G.234, A:S.235 Water bridges: A:I.214, A:A.236, A:A.236 pi-Stacking: A:F.212

6 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.2: 3 residues within 4Å: Chain A: P.217, F.258, A.261 No protein-ligand interaction detected (PLIP) EDO.3: 4 residues within 4Å: Chain A: L.144, N.147, I.148, A.149 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:I.148 Water bridges: A:N.147, A:A.149 EDO.5: 5 residues within 4Å: Chain B: T.60, K.61, C.62, Q.63, E.343 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.63 Water bridges: B:K.61 EDO.6: 5 residues within 4Å: Chain B: T.66, T.69, R.70, T.71, T.72 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:T.66, B:R.70 Water bridges: B:T.66, B:R.70, B:R.70, B:T.72, B:T.72 EDO.7: 3 residues within 4Å: Chain B: Y.8, G.10, E.11 No protein-ligand interaction detected (PLIP) EDO.11: 4 residues within 4Å: Chain B: T.3, L.4, L.5, N.6 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:L.4

1 x 0JO: 2-{[(E)-{3-hydroxy-2-methyl-5-[(phosphonooxy)methyl]pyridin-4-yl}methylidene]amino}prop-2-enoic acid(Non-covalent)

0JO.4: 24 residues within 4Å: Chain B: A.85, H.86, K.87, T.110, G.111, A.112, G.113, Q.114, H.115, L.166, T.190, C.230, V.231, G.232, G.233, G.234, S.235, N.236, G.303, L.304, A.348, E.350, S.377, G.378 27 PLIP interactions: 27 interactions with chain B Hydrophobic interactions: B:A.85, B:L.166, B:A.348, B:E.350 Hydrogen bonds: B:K.87, B:G.111, B:A.112, B:G.113, B:Q.114, B:H.115, B:T.190, B:G.232, B:G.233, B:G.234, B:S.235, B:S.235, B:N.236, B:N.236, B:S.377 Water bridges: B:K.87, B:E.109, B:T.190, B:A.237 Salt bridges: B:H.86, B:K.87, B:K.87 pi-Stacking: B:H.86

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

NA.8: 7 residues within 4Å: Chain B: V.231, G.232, E.256, G.268, P.270, S.308, V.309 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:V.231

2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.9: 3 residues within 4Å: Chain B: E.211, A.214, Q.215 1 PLIP interactions: 1 interactions with chain B Water bridges: B:D.218 PEG.10: 6 residues within 4Å: Chain B: T.248, S.249, V.250, G.251, G.320, R.321 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:S.249, B:R.321 Water bridges: B:L.252, B:G.320

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hilario, E. et al., The aminoacrylate form of the wild-type Salmonella typhimurium Tryptophan Synthase in complex with inhibitor N-(4'-trifluoromethoxybenzenesulfonyl)-2-amino-1-ethylphosphate (F9F) at the enzyme alpha-site and sodium ion at the metal coordination site at 1.60 Angstrom resolution. Three water molecules are close to the amynoacrylate at the enzyme beta-site. To be Published

Release Date

2021-12-22

Peptides

Tryptophan synthase alpha chain: A
Tryptophan synthase beta chain: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Tryptophan synthase alpha chain

Tryptophan synthase beta chain

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