SMTL ID : 2j9x.1

Tryptophan Synthase in complex with GP, alpha-D,L-glycerol-phosphate, Cs, pH6.5 - alpha aminoacrylate form - (GP)E(A-A)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

hetero-2-2-mer

Ligands

2 x G3P: SN-GLYCEROL-3-PHOSPHATE(Non-covalent)

G3P.1: 11 residues within 4Å: Chain A: F.22, I.64, L.100, Y.175, T.183, G.184, F.212, G.213, I.232, G.234, S.235 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:Y.175, A:G.184, A:F.212, A:G.213, A:I.214, A:G.234, A:S.235 Water bridges: A:D.60, A:I.214, A:I.214 G3P.9: 11 residues within 4Å: Chain C: F.22, I.64, L.100, Y.175, T.183, G.184, F.212, G.213, I.232, G.234, S.235 10 PLIP interactions: 10 interactions with chain C Hydrogen bonds: C:Y.175, C:G.184, C:F.212, C:G.213, C:I.214, C:G.234, C:S.235 Water bridges: C:D.60, C:I.214, C:I.214

2 x P1T: 2-[({3-HYDROXY-2-METHYL-5-[(PHOSPHONOOXY)METHYL]PYRIDIN-4-YL}METHYL)AMINO]ACRYLIC ACID(Non-covalent)

P1T.2: 24 residues within 4Å: Chain B: A.84, H.85, K.86, T.109, G.110, A.111, G.112, Q.113, H.114, L.165, T.189, C.229, V.230, G.231, G.232, G.233, S.234, N.235, G.302, L.303, A.347, E.349, S.376, G.377 22 PLIP interactions: 22 interactions with chain B Hydrophobic interactions: B:A.84, B:L.165, B:A.347, B:E.349 Hydrogen bonds: B:K.86, B:G.110, B:A.111, B:G.112, B:Q.113, B:H.114, B:T.189, B:G.231, B:G.233, B:S.234, B:N.235, B:S.376 Water bridges: B:G.233, B:N.235 Salt bridges: B:H.85, B:K.86, B:K.86 pi-Stacking: B:H.85 P1T.10: 24 residues within 4Å: Chain D: A.84, H.85, K.86, T.109, G.110, A.111, G.112, Q.113, H.114, L.165, T.189, C.229, V.230, G.231, G.232, G.233, S.234, N.235, G.302, L.303, A.347, E.349, S.376, G.377 24 PLIP interactions: 24 interactions with chain D Hydrophobic interactions: D:A.84, D:L.165, D:A.347, D:E.349 Hydrogen bonds: D:K.86, D:T.109, D:G.110, D:A.111, D:G.112, D:Q.113, D:H.114, D:G.231, D:G.233, D:S.234, D:N.235, D:S.376 Water bridges: D:T.189, D:T.189, D:G.233, D:N.235 Salt bridges: D:H.85, D:K.86, D:K.86 pi-Stacking: D:H.85

6 x CS: CESIUM ION(Non-covalent)

CS.3: 6 residues within 4Å: Chain B: V.230, G.231, G.267, L.303, F.305, S.307 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:G.231 CS.4: 7 residues within 4Å: Chain B: G.53, P.55 Chain D: G.53, P.55 Ligands: DMS.6, CS.12, DMS.14 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:G.53, B:P.55 CS.5: 3 residues within 4Å: Chain B: T.65, T.68, T.70 No protein-ligand interaction detected (PLIP) CS.11: 6 residues within 4Å: Chain D: V.230, G.231, G.267, L.303, F.305, S.307 1 PLIP interactions: 1 interactions with chain D Metal complexes: D:G.231 CS.12: 7 residues within 4Å: Chain B: G.53, P.55 Chain D: G.53, P.55 Ligands: CS.4, DMS.6, DMS.14 2 PLIP interactions: 2 interactions with chain D Metal complexes: D:G.53, D:P.55 CS.13: 3 residues within 4Å: Chain D: T.65, T.68, T.70 No protein-ligand interaction detected (PLIP)

6 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.6: 10 residues within 4Å: Chain B: P.55, A.57, Q.214 Chain D: K.49, G.53, R.54, P.55 Ligands: CS.4, CS.12, DMS.14 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Q.214 DMS.7: 5 residues within 4Å: Chain A: S.180 Chain B: G.178, S.179, Y.180, E.181 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:E.181 Water bridges: B:T.182 Salt bridges: B:E.181 pi-Cation interactions: B:Y.180 DMS.8: 4 residues within 4Å: Chain B: Y.132, E.171, R.174, D.175 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:E.171, B:D.175 DMS.14: 10 residues within 4Å: Chain B: K.49, G.53, R.54, P.55 Chain D: P.55, A.57, Q.214 Ligands: CS.4, DMS.6, CS.12 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:Q.214 DMS.15: 5 residues within 4Å: Chain C: S.180 Chain D: G.178, S.179, Y.180, E.181 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:E.181 Water bridges: D:T.182 Salt bridges: D:E.181 pi-Cation interactions: D:Y.180 DMS.16: 4 residues within 4Å: Chain D: Y.132, E.171, R.174, D.175 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:E.171 Salt bridges: D:E.171, D:D.175

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ngo, H. et al., Allosteric Regulation of Substrate Channeling in Tryptophan Synthase: Modulation of the L-Serine Reaction in Stage I of the Beta-Reaction by Alpha-Site Ligands. Biochemistry (2007)

Release Date

2007-06-26

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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