SMTL ID : 1of1.1

KINETICS AND CRYSTAL STRUCTURE OF THE HERPES SIMPLEX VIRUS TYPE 1 THYMIDINE KINASE INTERACTING WITH (SOUTH)-METHANOCARBA-THYMIDINE

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

homo-dimer

Ligands

2 x SCT: (SOUTH)-METHANOCARBA-THYMIDINE(Non-covalent)

SCT.1: 14 residues within 4Å: Chain A: H.58, E.83, I.97, I.100, Y.101, Q.125, M.128, Y.132, R.163, A.167, A.168, Y.172, R.222, E.225 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:H.58, A:I.97, A:I.97, A:Y.101, A:Y.132, A:Y.172, A:R.222 Hydrogen bonds: A:Q.125, A:Q.125, A:R.163, A:R.163, A:E.225 Water bridges: A:R.176, A:R.176 pi-Stacking: A:Y.172 SCT.3: 13 residues within 4Å: Chain B: H.58, E.83, W.88, I.97, I.100, Y.101, Q.125, M.128, R.163, A.167, A.168, Y.172, E.225 13 PLIP interactions: 13 interactions with chain B Hydrophobic interactions: B:W.88, B:I.97, B:I.97, B:Y.101, B:Y.172 Hydrogen bonds: B:E.83, B:Y.101, B:Q.125, B:Q.125, B:R.163, B:E.225 Water bridges: B:R.176 pi-Stacking: B:Y.172

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

SO4.2: 9 residues within 4Å: Chain A: P.57, H.58, G.59, M.60, G.61, K.62, T.63, R.220, R.222 15 PLIP interactions: 15 interactions with chain A Hydrogen bonds: A:G.59, A:M.60, A:G.61, A:K.62, A:T.63, A:T.63, A:R.220 Water bridges: A:K.62, A:K.62, A:T.64, A:R.163, A:R.220, A:R.222 Salt bridges: A:K.62, A:R.222 SO4.4: 7 residues within 4Å: Chain B: P.57, H.58, G.59, M.60, G.61, K.62, T.63 11 PLIP interactions: 11 interactions with chain B Hydrogen bonds: B:G.59, B:M.60, B:G.61, B:K.62, B:T.63 Water bridges: B:K.62, B:K.62, B:K.62, B:T.63, B:T.63 Salt bridges: B:K.62

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Schelling, P. et al., Biochemical and Structural Characterization of (South)-Methanocarbathymidine that Specifically Inhibits Growth of Herpes Simplex Virus Type 1 Thymidine Kinase-Transduced Osteosarcoma Cells. J.Biol.Chem. (2004)

Release Date

2004-06-03

Peptides

THYMIDINE KINASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

THYMIDINE KINASE