SMTL ID : 7mt5.1

Crystal structure of tryptophan synthase in complex with F9, Cs+, pH7.8 - alpha aminoacrylate form - E(A-A)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

hetero-2-2-mer

Ligands

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

F9F.1: 18 residues within 4Å: Chain A: F.22, E.49, A.59, I.64, L.100, L.127, A.129, I.153, Y.175, T.183, G.184, F.212, G.213, I.232, S.233, G.234, S.235 Chain B: P.18 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:L.100, A:L.127, A:Y.175, A:T.183 Hydrogen bonds: A:G.184, A:F.212, A:G.213, A:G.234, A:S.235 Water bridges: A:I.214, A:I.214 pi-Stacking: A:F.212 F9F.6: 18 residues within 4Å: Chain C: F.22, E.49, A.59, I.64, L.100, L.127, A.129, I.153, Y.175, T.183, G.184, F.212, G.213, I.232, S.233, G.234, S.235 Chain D: P.18 13 PLIP interactions: 13 interactions with chain C Hydrophobic interactions: C:L.100, C:L.127, C:Y.175, C:T.183 Hydrogen bonds: C:Y.175, C:G.184, C:F.212, C:G.213, C:G.234, C:S.235 Water bridges: C:I.214, C:I.214 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.7: 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 CS: CESIUM ION(Non-covalent)

CS.3: 7 residues within 4Å: Chain B: V.231, G.232, G.268, L.304, F.306, S.308 Ligands: CS.4 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:F.306 CS.4: 8 residues within 4Å: Chain B: V.231, G.232, E.256, G.268, P.270, S.308, V.309 Ligands: CS.3 No protein-ligand interaction detected (PLIP) CS.5: 3 residues within 4Å: Chain B: T.66, T.69, T.71 No protein-ligand interaction detected (PLIP) CS.8: 7 residues within 4Å: Chain D: V.231, G.232, G.268, L.304, F.306, S.308 Ligands: CS.9 1 PLIP interactions: 1 interactions with chain D Metal complexes: D:F.306 CS.9: 8 residues within 4Å: Chain D: V.231, G.232, E.256, G.268, P.270, S.308, V.309 Ligands: CS.8 No protein-ligand interaction detected (PLIP) CS.10: 3 residues within 4Å: Chain D: T.66, T.69, T.71 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Holmes, J.B. et al., Imaging active site chemistry and protonation states: NMR crystallography of the tryptophan synthase alpha-aminoacrylate intermediate. Proc.Natl.Acad.Sci.USA (2022)

Release Date

2021-12-29

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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