SMTL ID : 1tmk.1

YEAST THYMIDYLATE KINASE COMPLEXED WITH THYMIDINE MONOPHOSPHATE (DTMP)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-dimer

Ligands

2 x TMP: THYMIDINE-5'-PHOSPHATE(Non-covalent)

TMP.1: 13 residues within 4Å: Chain A: D.14, K.37, F.38, P.39, R.41, L.53, F.69, R.73, R.94, S.98, G.99, Y.102, Y.151 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:F.38, A:Y.102 Hydrogen bonds: A:D.14, A:D.14, A:R.73, A:R.73 Water bridges: A:R.41, A:S.70, A:R.94, A:R.94, A:G.99 Salt bridges: A:K.37, A:R.41, A:R.94 pi-Stacking: A:F.69 TMP.3: 15 residues within 4Å: Chain B: D.14, K.37, F.38, P.39, R.41, L.53, F.69, R.73, R.94, Y.95, S.98, G.99, Y.102, E.149, Y.151 18 PLIP interactions: 18 interactions with chain B Hydrophobic interactions: B:F.38, B:R.94, B:Y.102 Hydrogen bonds: B:D.14, B:R.73, B:R.73 Water bridges: B:K.18, B:K.18, B:K.18, B:R.94, B:G.99, B:S.103, B:Y.151 Salt bridges: B:K.18, B:K.37, B:R.41, B:R.94 pi-Stacking: B:F.69

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 7 residues within 4Å: Chain B: L.13, D.14, R.15, T.16, G.17, K.18, T.19 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:R.15, B:T.16, B:G.17, B:K.18, B:T.19 Water bridges: B:K.18, B:K.18, B:K.18, B:T.19, B:T.20, B:T.20 Salt bridges: B:K.18

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lavie, A. et al., Structure of thymidylate kinase reveals the cause behind the limiting step in AZT activation. Nat.Struct.Biol. (1997)

Release Date

1998-06-17

Peptides

THYMIDYLATE KINASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

THYMIDYLATE KINASE

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