SMTL ID : 2jas.3 (2 other biounits)

Structure of deoxyadenosine kinase from M.mycoides with bound dATP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

homo-dimer

Ligands

2 x DTP: 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE(Non-covalent)

DTP.1: 23 residues within 4Å: Chain A: T.9, V.10, G.11, A.12, G.13, K.14, S.15, K.31, E.32, V.34, F.40, Y.43, Y.44, M.54, Q.55, M.58, R.62, D.78, R.79, D.84, F.87, E.151 Ligands: MG.2 21 PLIP interactions: 21 interactions with chain A Hydrophobic interactions: A:V.10 Hydrogen bonds: A:G.11, A:A.12, A:G.13, A:K.14, A:S.15, A:Y.44, A:Q.55, A:Q.55, A:R.62, A:R.79, A:D.84, A:E.151, A:E.151 Salt bridges: A:K.14, A:K.14, A:K.14, A:K.31, A:R.79 pi-Stacking: A:F.87, A:F.87 DTP.3: 21 residues within 4Å: Chain B: T.9, V.10, G.11, A.12, G.13, K.14, S.15, E.32, F.40, Y.43, Y.44, M.54, Q.55, M.58, R.62, D.78, R.79, D.84, F.87, E.151 Ligands: MG.4 20 PLIP interactions: 20 interactions with chain B Hydrophobic interactions: B:V.10 Hydrogen bonds: B:T.9, B:G.11, B:A.12, B:G.13, B:K.14, B:S.15, B:Y.44, B:Q.55, B:Q.55, B:R.62, B:R.79, B:D.84, B:E.151 Salt bridges: B:K.14, B:K.14, B:K.14, B:R.79 pi-Stacking: B:F.87, B:F.87

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 2 residues within 4Å: Chain A: E.151 Ligands: DTP.1 No protein-ligand interaction detected (PLIP) MG.4: 2 residues within 4Å: Chain B: E.151 Ligands: DTP.3 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Welin, M. et al., Structure-Function Analysis of a Bacterial Deoxyadenosine Kinase Reveals the Basis for Substrate Specificity. J.Mol.Biol. (2007)

Release Date

2007-01-03

Peptides

DEOXYGUANOSINE KINASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

B
F

DEOXYGUANOSINE KINASE

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