SMTL ID : 4hn4.1

Tryptophan synthase in complex with alpha aminoacrylate E(A-A) form and the F9 inhibitor in the alpha site

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.64 Å

Oligo State

hetero-2-2-mer

Ligands

2 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, R.179, T.183, G.184, F.212, G.213, I.232, S.233, G.234, S.235 Chain B: P.18 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: 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:I.214, A:A.236 pi-Stacking: A:F.212 F9F.11: 19 residues within 4Å: Chain C: F.22, E.49, A.59, I.64, L.100, L.127, A.129, I.153, Y.175, R.179, T.183, G.184, F.212, G.213, I.232, S.233, G.234, S.235 Chain D: P.18 15 PLIP interactions: 15 interactions with chain C Hydrophobic interactions: C:L.100, C:L.127, C:Y.175, C:T.183 Hydrogen bonds: C:Y.175, C:R.179, C:G.184, C:F.212, C:G.213, C:G.234, C:S.235 Water bridges: C:I.214, C:I.214, C:A.236 pi-Stacking: C:F.212

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

0JO.2: 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:E.109, B:T.190, B:A.237, B:G.303 Salt bridges: B:H.86, B:K.87, B:K.87 pi-Stacking: B:H.86 0JO.12: 24 residues within 4Å: Chain D: 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 D Hydrophobic interactions: D:A.85, D:L.166, D:A.348, D:E.350 Hydrogen bonds: D:K.87, D:T.110, D:G.111, D:A.112, D:G.113, D:Q.114, D:H.115, D:G.232, D:G.233, D:G.234, D:S.235, D:S.235, D:N.236, D:N.236, D:S.377 Water bridges: D:E.109, D:T.190, D:A.237, D:G.303 Salt bridges: D:H.86, D:K.87, D:K.87 pi-Stacking: D:H.86

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

PEG.3: 4 residues within 4Å: Chain B: T.3, L.4, L.5, N.6 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:T.3 Water bridges: B:N.6 PEG.4: 4 residues within 4Å: Chain B: T.328, D.330, E.331 Ligands: BCN.8 3 PLIP interactions: 3 interactions with chain B Water bridges: B:D.330, B:D.330, B:D.330 PEG.5: 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.13: 4 residues within 4Å: Chain D: T.3, L.4, L.5, N.6 1 PLIP interactions: 1 interactions with chain D Water bridges: D:N.6 PEG.14: 4 residues within 4Å: Chain D: T.328, D.330, E.331 Ligands: BCN.18 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:T.328 Water bridges: D:D.330, D:D.330 PEG.15: 3 residues within 4Å: Chain D: E.211, A.214, Q.215 1 PLIP interactions: 1 interactions with chain D Water bridges: D:D.218

6 x BCN: BICINE(Non-covalent)

BCN.6: 4 residues within 4Å: Chain B: T.289, A.290, D.291, Q.293 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:T.289, B:D.291 Water bridges: B:A.290, B:A.290 Salt bridges: B:D.291 BCN.7: 9 residues within 4Å: Chain B: T.248, S.249, V.250, G.251, L.252, G.320, R.321, A.322, D.323 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:S.249, B:L.252, B:L.252, B:R.321 Salt bridges: B:R.321, B:D.323 BCN.8: 7 residues within 4Å: Chain B: G.259, H.260, E.263, T.328, D.329, D.330 Ligands: PEG.4 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:E.263, B:D.330, B:D.330 Salt bridges: B:D.330 BCN.16: 4 residues within 4Å: Chain D: T.289, A.290, D.291, Q.293 5 PLIP interactions: 5 interactions with chain D Hydrogen bonds: D:D.291, D:D.291 Water bridges: D:A.290, D:A.290 Salt bridges: D:D.291 BCN.17: 9 residues within 4Å: Chain D: T.248, S.249, V.250, G.251, L.252, G.320, R.321, A.322, D.323 6 PLIP interactions: 6 interactions with chain D Hydrogen bonds: D:S.249, D:L.252, D:L.252, D:R.321 Salt bridges: D:R.321, D:D.323 BCN.18: 7 residues within 4Å: Chain D: G.259, H.260, E.263, T.328, D.329, D.330 Ligands: PEG.14 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:E.263, D:T.328, D:D.330 Salt bridges: D:D.330

4 x CS: CESIUM ION(Non-covalent)

CS.9: 3 residues within 4Å: Chain B: T.66, T.69, T.71 No protein-ligand interaction detected (PLIP) CS.10: 6 residues within 4Å: Chain B: V.231, G.232, G.268, L.304, F.306, S.308 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:F.306 CS.19: 3 residues within 4Å: Chain D: T.66, T.69, T.71 No protein-ligand interaction detected (PLIP) CS.20: 6 residues within 4Å: Chain D: V.231, G.232, G.268, L.304, F.306, S.308 1 PLIP interactions: 1 interactions with chain D Metal complexes: D:F.306

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Niks, D. et al., Allostery and substrate channeling in the tryptophan synthase bienzyme complex: evidence for two subunit conformations and four quaternary states. Biochemistry (2013)

Release Date

2013-12-25

Peptides

Tryptophan synthase alpha chain: AC
Tryptophan synthase beta chain: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

B
B

D
B

Tryptophan synthase alpha chain

Tryptophan synthase beta chain

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