SMTL ID : 1e2j.1

The nucleoside binding site of Herpes simplex type 1 thymidine kinase analyzed by X-ray crystallography

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

homo-dimer

Ligands

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

SO4.1: 8 residues within 4Å: Chain A: H.13, G.14, M.15, G.16, K.17, T.18, R.175, R.177 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:G.14, A:M.15, A:G.16, A:K.17, A:T.18, A:T.18, A:T.18 Water bridges: A:R.177 Salt bridges: A:K.17, A:R.177 SO4.3: 6 residues within 4Å: Chain B: H.13, G.14, M.15, G.16, K.17, T.18 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:G.14, B:M.15, B:G.16, B:K.17, B:T.18 Water bridges: B:K.17 Salt bridges: B:K.17

2 x THM: THYMIDINE(Non-covalent)

THM.2: 14 residues within 4Å: Chain A: H.13, E.38, I.52, I.55, Y.56, N.80, M.83, Y.87, R.118, A.122, A.123, Y.127, R.177, E.180 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:Y.87, A:Y.127 Hydrogen bonds: A:E.180 Water bridges: A:E.38, A:N.80, A:R.118, A:R.131, A:R.131 pi-Stacking: A:Y.127 THM.4: 11 residues within 4Å: Chain B: H.13, E.38, W.43, I.55, Y.56, N.80, M.83, Y.87, R.118, A.123, Y.127 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:H.13, B:Y.127 Hydrogen bonds: B:E.38, B:E.38, B:Y.56 Water bridges: B:N.80, B:R.118, B:R.131 pi-Stacking: B:Y.127

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Vogt, J. et al., Nucleoside Binding Site of Herpes Simplex Type 1 Thymidine Kinase Analyzed by X-Ray Crystallography. Proteins: Struct.,Funct., Genet. (2000)

Release Date

2000-11-06

Peptides

THYMIDINE KINASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

THYMIDINE KINASE