SMTL ID : 6k28.1

Crystal structure of the 5-(Hydroxyethyl)-methylthiazole Kinase ThiM from Klebsiella pneumonia in complex with TZE

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-trimer

Ligands

3 x TZE: 2-(4-METHYL-THIAZOL-5-YL)-ETHANOL(Non-covalent)

TZE.1: 14 residues within 4Å: Chain A: A.37, P.47, A.48, M.49 Chain B: N.29, V.31, V.32, G.71, T.72, V.100, R.108, V.196, G.197, C.200 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:V.196 Hydrogen bonds: B:N.29, A:M.49 Water bridges: B:G.197 TZE.2: 14 residues within 4Å: Chain A: N.29, V.31, V.32, G.71, T.72, V.100, R.108, V.196, G.197, C.200 Chain C: A.37, P.47, A.48, M.49 4 PLIP interactions: 1 interactions with chain C, 3 interactions with chain A Hydrogen bonds: C:M.49 Hydrophobic interactions: A:V.32, A:V.196 Water bridges: A:N.69 TZE.5: 14 residues within 4Å: Chain B: A.37, P.47, A.48, M.49 Chain C: N.29, V.31, V.32, G.71, T.72, V.100, R.108, V.196, G.197, C.200 3 PLIP interactions: 2 interactions with chain C, 1 interactions with chain B Hydrophobic interactions: C:V.196 Hydrogen bonds: C:G.197, B:M.49

3 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 7 residues within 4Å: Chain A: D.98, P.99, V.100, R.124, G.125, N.126, E.129 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.98, A:E.129, H2O.6 MG.4: 6 residues within 4Å: Chain B: D.98, V.100, R.124, G.125, N.126, E.129 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.98, B:E.129, H2O.9 MG.6: 6 residues within 4Å: Chain C: D.98, V.100, R.124, G.125, N.126, E.129 3 PLIP interactions: 2 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:D.98, C:E.129, H2O.19

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chen, Y. et al., Structural insight of the 5-(Hydroxyethyl)-methylthiazole kinase ThiM involving vitamin B1 biosynthetic pathway from the Klebsiella pneumoniae. Biochem.Biophys.Res.Commun. (2019)

Release Date

2019-07-10

Peptides

Hydroxyethylthiazole kinase: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Hydroxyethylthiazole kinase

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