SMTL ID : 1kim.1

CRYSTAL STRUCTURE OF THYMIDINE KINASE FROM HERPES SIMPLEX VIRUS TYPE I COMPLEXED WITH DEOXYTHYMIDINE

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.14 Å

Oligo State

homo-dimer

Ligands

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

SO4.1: 8 residues within 4Å: Chain A: H.48, G.49, M.50, G.51, K.52, T.53, K.209, R.212 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:G.49, A:M.50, A:G.51, A:K.52, A:T.53 Water bridges: A:H.48, A:T.54, A:T.54, A:R.212, A:R.212, A:R.212 Salt bridges: A:K.52, A:K.209, A:R.212 SO4.3: 7 residues within 4Å: Chain B: H.48, G.49, M.50, G.51, K.52, T.53, R.212 11 PLIP interactions: 11 interactions with chain B Hydrogen bonds: B:G.49, B:M.50, B:G.51, B:K.52, B:T.53, B:R.212 Water bridges: B:H.48, B:R.153, B:R.153, B:R.212 Salt bridges: B:K.52

2 x THM: THYMIDINE(Non-covalent)

THM.2: 13 residues within 4Å: Chain A: H.48, E.73, I.87, I.90, Y.91, Q.115, M.118, Y.122, R.153, A.158, Y.162, R.212, E.215 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:H.48, A:Y.162 Hydrogen bonds: A:E.73, A:Y.91, A:Q.115, A:Q.115, A:E.215 Water bridges: A:R.166, A:R.166 pi-Stacking: A:Y.162 THM.4: 13 residues within 4Å: Chain B: H.48, E.73, W.78, I.87, I.90, Y.91, Q.115, M.118, R.153, A.158, Y.162, R.212, E.215 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:H.48, B:W.78, B:Y.162 Hydrogen bonds: B:E.73, B:Q.115, B:Q.115, B:R.153, B:E.215 Water bridges: B:R.166, B:R.166, B:R.212 pi-Stacking: B:Y.162

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Champness, J.N. et al., Exploring the active site of herpes simplex virus type-1 thymidine kinase by X-ray crystallography of complexes with aciclovir and other ligands. Proteins (1998)

Release Date

1998-05-20

Peptides

THYMIDINE KINASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

THYMIDINE KINASE

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