SMTL ID : 1e2l.1

Kinetics and crystal structure of the wild-type and the engineered Y101F mutant of Herpes simplex virus type 1 thymidine kinase interacting with (North)-methanocarba-thymidine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 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 9 PLIP interactions: 9 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:R.175 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 8 PLIP interactions: 8 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, B:K.17 Salt bridges: B:K.17

2 x TMC: 1-[4-HYDROXY-5-(HYDROXYMETHYL)BICYCLO[3.1.0]HEX-2-YL]-5-METHYLPYRIMIDINE-2,4(1H,3H)-DIONE(Non-covalent)

TMC.2: 13 residues within 4Å: Chain A: H.13, E.38, I.52, I.55, Q.80, M.83, Y.87, R.118, A.122, A.123, Y.127, R.177, E.180 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:I.52, A:Y.127 Hydrogen bonds: A:E.38, A:Q.80, A:Q.80, A:R.118, A:R.177 Water bridges: A:K.17, A:R.131 pi-Stacking: A:Y.127 TMC.4: 11 residues within 4Å: Chain B: H.13, E.38, W.43, I.52, I.55, Q.80, M.83, Y.87, R.118, A.123, Y.127 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:I.52, B:I.52, B:Y.127 Hydrogen bonds: B:E.38, B:Q.80, B:Q.80, B:R.118 Water bridges: B:E.38, B:R.131 pi-Stacking: B:Y.127

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Prota, A. et al., Kinetics and Crystal Structure of the Wild-Type and the Engineered Y101F Mutant of Herpes Simplex Virus Type 1 Thymidine Kinase Interacting with (North)-Methanocarba-Thymidine. Biochemistry (2000)

Release Date

2000-08-18

Peptides

THYMIDINE KINASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

THYMIDINE KINASE