SMTL ID : 7k5a.1

The external aldimine form of Salmonella typhimurium Tryptophan Synthase mutant beta-Q114A in complex with cesium ion at the metal coordination site.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

hetero-1-1-mer

Ligands

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

PEG.1: 5 residues within 4Å: Chain A: F.107, N.108, G.110 Chain B: R.275, V.276 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:G.110, B:R.275

1 x SER: SERINE(Non-covalent)

SER.2: 6 residues within 4Å: Chain A: M.1, E.5, L.144, N.147, I.148, A.149 6 PLIP interactions: 3 Ligand-Ligand interactions, 3 interactions with chain A Hydrogen bonds: S.2, S.2, A:M.1, A:M.1, A:E.5 Water bridges: S.2

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

DMS.3: 6 residues within 4Å: Chain A: A.167, S.168, G.170, R.171, H.204, A.206 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:A.206 Water bridges: A:G.170, A:G.172 DMS.4: 3 residues within 4Å: Chain A: N.12, E.16, V.224 No protein-ligand interaction detected (PLIP) DMS.10: 4 residues within 4Å: Chain B: K.50, G.54, R.55, P.56 No protein-ligand interaction detected (PLIP) DMS.11: 5 residues within 4Å: Chain B: Q.42, F.45, A.46, L.49, M.207 No protein-ligand interaction detected (PLIP) DMS.12: 4 residues within 4Å: Chain B: T.3, L.4, L.5, N.6 No protein-ligand interaction detected (PLIP) DMS.13: 2 residues within 4Å: Chain B: Y.8, G.10 1 PLIP interactions: 1 interactions with chain B pi-Cation interactions: B:Y.8 DMS.14: 4 residues within 4Å: Chain B: P.56, E.211, A.214, Q.215 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Q.215

4 x CL: CHLORIDE ION(Non-functional Binders)

CL.5: 4 residues within 4Å: Chain A: H.92, P.93, T.94, I.95 Ligand excluded by PLIP CL.6: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP CL.17: 3 residues within 4Å: Chain B: D.225, S.249, G.251 Ligand excluded by PLIP CL.18: 1 residues within 4Å: Chain B: D.323 Ligand excluded by PLIP

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

EDO.7: 3 residues within 4Å: Chain B: I.319, G.320, R.321 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:G.320 EDO.8: 7 residues within 4Å: Chain A: E.134, P.155, N.157, L.162 Chain B: Q.19, M.22, P.23 6 PLIP interactions: 3 interactions with chain A, 3 interactions with chain B Water bridges: A:E.134, A:E.134, A:D.159, B:N.26 Hydrogen bonds: B:Q.19, B:Q.19

1 x KOU: (E)-N-({3-hydroxy-2-methyl-5-[(phosphonooxy)methyl]pyridin-4-yl}methylidene)-L-serine(Non-covalent)

KOU.9: 22 residues within 4Å: Chain B: A.85, H.86, K.87, T.110, G.111, A.112, G.113, A.114, H.115, T.190, C.230, V.231, G.232, G.233, G.234, S.235, N.236, G.303, L.304, E.350, S.377, G.378 24 PLIP interactions: 24 interactions with chain B Hydrophobic interactions: B:A.85 Hydrogen bonds: B:K.87, B:T.110, B:G.111, B:A.112, B:G.113, B:A.114, B:H.115, 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:T.190, B:T.190, B:G.234, B:A.237 Salt bridges: B:H.86, B:K.87, B:K.87 pi-Stacking: B:H.86

2 x CS: CESIUM ION(Non-covalent)

CS.15: 3 residues within 4Å: Chain B: T.66, T.69, T.71 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:T.71 CS.16: 6 residues within 4Å: Chain B: V.231, G.232, E.256, G.268, P.270, S.308 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hilario, E. et al., The external aldimine form of Salmonella typhimurium Tryptophan Synthase mutant beta-Q114A in complex with cesium ion at the metal coordination site. To be Published

Release Date

2021-09-22

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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