SMTL ID : 1ki2.2 (1 other biounit)

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

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-tetramer

Ligands

4 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 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:G.14, A:M.15, A:G.16, A:K.17, A:T.18 Salt bridges: A:K.17, A:R.177 SO4.3: 8 residues within 4Å: Chain B: P.12, H.13, G.14, M.15, G.16, K.17, T.18, R.177 10 PLIP interactions: 10 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, B:K.17 Salt bridges: B:K.17, B:R.177 SO4.5: 8 residues within 4Å: Chain C: H.13, G.14, M.15, G.16, K.17, T.18, R.175, R.177 7 PLIP interactions: 7 interactions with chain C Hydrogen bonds: C:G.14, C:M.15, C:G.16, C:K.17, C:T.18 Salt bridges: C:K.17, C:R.177 SO4.7: 8 residues within 4Å: Chain D: P.12, H.13, G.14, M.15, G.16, K.17, T.18, R.177 10 PLIP interactions: 10 interactions with chain D Hydrogen bonds: D:G.14, D:M.15, D:G.16, D:K.17, D:T.18 Water bridges: D:K.17, D:K.17, D:K.17 Salt bridges: D:K.17, D:R.177

4 x GA2: 9-(1,3-DIHYDROXY-PROPOXYMETHANE)GUANINE(Non-covalent)

GA2.2: 12 residues within 4Å: Chain A: H.13, E.38, I.55, Y.56, Q.80, M.83, R.118, A.123, Y.127, R.131, R.177, E.180 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:E.38, A:Y.56, A:Q.80, A:Q.80, A:Q.80, A:R.118, A:R.131, A:E.180 pi-Stacking: A:Y.127 GA2.4: 12 residues within 4Å: Chain B: H.13, E.38, W.43, I.55, Y.56, Q.80, M.83, R.118, Y.127, R.131, R.177, E.180 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:H.13, B:E.38, B:Q.80, B:Q.80, B:Q.80, B:R.118, B:R.131, B:R.177, B:E.180, B:E.180 pi-Stacking: B:Y.127, B:Y.127 GA2.6: 12 residues within 4Å: Chain C: H.13, E.38, I.55, Y.56, Q.80, M.83, R.118, A.123, Y.127, R.131, R.177, E.180 9 PLIP interactions: 9 interactions with chain C Hydrogen bonds: C:H.13, C:E.38, C:Q.80, C:Q.80, C:Q.80, C:R.118, C:R.131, C:E.180 pi-Stacking: C:Y.127 GA2.8: 12 residues within 4Å: Chain D: H.13, E.38, W.43, I.55, Y.56, Q.80, M.83, R.118, Y.127, R.131, R.177, E.180 11 PLIP interactions: 11 interactions with chain D Hydrogen bonds: D:E.38, D:Y.56, D:Q.80, D:Q.80, D:Q.80, D:R.118, D:R.131, D:R.177, D:E.180 pi-Stacking: D:Y.127, D:Y.127

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

1998-12-02

Peptides

THYMIDINE KINASE: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

THYMIDINE KINASE

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