SMTL ID : 2vpp.1

Drosophila melanogaster deoxyribonucleoside kinase successfully activates gemcitabine in transduced cancer cell lines

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-dimer

Ligands

2 x GEO: GEMCITABINE(Non-covalent)

GEO.1: 13 residues within 4Å: Chain A: I.29, E.52, V.54, W.57, M.69, Y.70, F.80, Q.81, V.84, R.105, A.110, F.114, E.172 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:W.57 Hydrogen bonds: A:E.52, A:Q.81, A:Q.81, A:R.105, A:E.172, A:E.172 Water bridges: A:R.105 pi-Stacking: A:F.114 Halogen bonds: A:R.105 GEO.3: 14 residues within 4Å: Chain B: I.29, E.52, V.54, W.57, L.66, M.69, Y.70, F.80, Q.81, V.84, R.105, A.110, F.114, E.172 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:W.57 Hydrogen bonds: B:E.52, B:Q.81, B:Q.81, B:R.105, B:E.172, B:E.172 Water bridges: B:R.105 pi-Stacking: B:F.114 Halogen bonds: B:Y.70, B:R.105

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

SO4.2: 8 residues within 4Å: Chain A: N.28, I.29, G.30, S.31, G.32, K.33, T.34, R.167 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:N.28, A:G.30, A:S.31, A:G.32, A:K.33, A:T.34 Water bridges: A:K.33, A:T.34, A:T.34, A:T.35, A:R.105 Salt bridges: A:K.33, A:R.167 SO4.4: 8 residues within 4Å: Chain B: N.28, I.29, G.30, S.31, G.32, K.33, T.34, R.167 13 PLIP interactions: 13 interactions with chain B Hydrogen bonds: B:N.28, B:G.30, B:S.31, B:G.32, B:K.33, B:T.34, B:T.34 Water bridges: B:K.33, B:T.34, B:T.35, B:R.105 Salt bridges: B:K.33, B:R.167

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Knecht, W. et al., Drosophila Melanogaster Deoxyribonucleoside Kinase Activates Gemcitabine. Biochem.Biophys.Res.Commun. (2009)

Release Date

2009-03-24

Peptides

DEOXYNUCLEOSIDE KINASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

DEOXYNUCLEOSIDE KINASE

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