SMTL ID : 3uxm.5 (5 other biounits)

Structure Guided Development of Novel Thymidine Mimetics targeting Pseudomonas aeruginosa Thymidylate Kinase: from Hit to Lead Generation

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

homo-dimer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 2 residues within 4Å: Chain A: E.157, D.158 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:E.157, A:D.158, H2O.2, H2O.3, H2O.3 MG.2: 4 residues within 4Å: Chain A: E.11, D.152, E.155 Ligands: 0DN.3 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:E.11, A:E.155, H2O.1, H2O.3, H2O.3

2 x 0DN: 5'-deoxy-5'-fluorothymidine(Non-covalent)

0DN.3: 15 residues within 4Å: Chain A: E.11, E.38, P.39, R.49, L.53, M.69, R.73, R.95, F.96, A.99, T.100, Y.103, Q.104, F.154 Ligands: MG.2 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:E.38, A:R.95, A:A.99, A:Y.103 Hydrogen bonds: A:E.11, A:R.73, A:R.73, A:Q.104, A:Q.104 0DN.4: 14 residues within 4Å: Chain B: E.38, P.39, R.49, L.53, M.69, R.73, R.95, F.96, A.99, T.100, Y.103, Q.104, D.152, F.154 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:E.38, B:R.95, B:A.99, B:Y.103 Hydrogen bonds: B:R.73, B:Q.104, B:Q.104 Halogen bonds: B:E.38

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Choi, J.Y. et al., Structure guided development of novel thymidine mimetics targeting Pseudomonas aeruginosa thymidylate kinase: from hit to lead generation. J.Med.Chem. (2012)

Release Date

2012-02-01

Peptides

Thymidylate kinase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Thymidylate kinase

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