SMTL ID : 3tmk.2 (3 other biounits)

CRYSTAL STRUCTURE OF YEAST THYMIDYLATE KINASE COMPLEXED WITH THE BISUBSTRATE INHIBITOR TP5A AT 2.0 A RESOLUTION: IMPLICATIONS FOR CATALYSIS AND AZT ACTIVATION

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

2 x T5A: P1-(5'-ADENOSYL)P5-(5'-THYMIDYL)PENTAPHOSPHATE(Non-covalent)

T5A.1: 24 residues within 4Å: Chain A: D.14, R.15, T.16, G.17, K.18, T.19, T.20, K.37, F.38, P.39, R.41, L.53, F.69, R.73, R.94, S.98, G.99, Y.102, E.149, Y.151, E.152, K.187, G.188, I.189 29 PLIP interactions: 29 interactions with chain A Hydrophobic interactions: A:F.38, A:Y.102 Hydrogen bonds: A:D.14, A:R.15, A:T.16, A:G.17, A:K.18, A:T.19, A:T.19, A:T.20, A:T.20, A:R.73, A:R.73, A:D.93, A:K.187 Water bridges: A:K.37, A:K.37, A:R.41, A:R.41, A:G.99, A:S.103 Salt bridges: A:K.18, A:K.18, A:K.37, A:K.37, A:R.41, A:R.94, A:R.94 pi-Stacking: A:F.69 T5A.2: 24 residues within 4Å: Chain B: D.14, R.15, T.16, G.17, K.18, T.19, T.20, K.37, F.38, P.39, R.41, L.53, F.69, R.73, R.94, S.98, G.99, Y.102, K.143, E.149, Y.151, K.187, G.188, I.189 39 PLIP interactions: 39 interactions with chain B Hydrophobic interactions: B:F.38, B:Y.102 Hydrogen bonds: B:D.14, B:R.15, B:R.15, B:T.16, B:G.17, B:K.18, B:T.19, B:T.19, B:T.20, B:T.20, B:R.73, B:R.73, B:K.143, B:K.187 Water bridges: B:K.18, B:K.37, B:K.37, B:K.37, B:R.41, B:R.41, B:S.103, B:E.149, B:E.149, B:Y.151, B:E.152, B:K.187, B:I.189 Salt bridges: B:R.15, B:K.18, B:K.18, B:K.37, B:K.37, B:K.37, B:R.41, B:R.94, B:R.94 pi-Stacking: B:F.69

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lavie, A. et al., Crystal structure of yeast thymidylate kinase complexed with the bisubstrate inhibitor P1-(5'-adenosyl) P5-(5'-thymidyl) pentaphosphate (TP5A) at 2.0 A resolution: implications for catalysis and AZT activation. Biochemistry (1998)

Release Date

1999-02-16

Peptides

THYMIDYLATE KINASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

THYMIDYLATE KINASE

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