SMTL ID : 5kb5.1

Crystal structure of the adenosine kinase from Mus musculus in complex with adenosine and adenosine-diphosphate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

1 x ADN: ADENOSINE(Non-covalent)

ADN.1: 17 residues within 4Å: Chain A: N.32, L.34, D.36, L.58, G.81, G.82, S.83, N.86, C.141, L.152, A.154, L.156, F.188, N.314, G.315, D.318 Ligands: CL.4 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:D.36, A:G.82, A:S.83, A:N.86, A:G.315 Water bridges: A:N.32, A:N.314 pi-Stacking: A:F.188, A:F.188

1 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.2: 19 residues within 4Å: Chain A: R.150, N.241, E.242, T.283, Q.284, G.285, R.286, T.289, V.302, D.304, Q.307, I.310, A.316, G.317, H.342, A.345, I.349 Ligands: MG.5, MG.6 19 PLIP interactions: 19 interactions with chain A Hydrogen bonds: A:N.241, A:E.242, A:T.283, A:G.285, A:Q.307, A:Q.307, A:A.316, A:G.317 Water bridges: A:R.150, A:R.150, A:R.150, A:N.214, A:N.214, A:S.216, A:E.244, A:Q.284, A:G.317, A:S.346 Salt bridges: A:R.150

1 x K: POTASSIUM ION(Non-covalent)

K.3: 5 residues within 4Å: Chain A: D.312, N.314, I.348, R.351, G.353 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.312, A:N.314, A:I.348, A:R.351, A:G.353

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.4: 6 residues within 4Å: Chain A: G.31, N.32, S.83, T.84, A.186 Ligands: ADN.1 Ligand excluded by PLIP

2 x MG: MAGNESIUM ION(Non-functional Binders)

MG.5: 1 residues within 4Å: Ligands: ADP.2 No protein-ligand interaction detected (PLIP) MG.6: 1 residues within 4Å: Ligands: ADP.2 No protein-ligand interaction detected (PLIP)

2 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.7: 4 residues within 4Å: Chain A: H.99, A.122, H.125, E.358 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.125, A:E.358 Water bridges: A:Q.96 PG4.8: 6 residues within 4Å: Chain A: D.258, K.260, E.261, K.264, D.296, V.297 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.264

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.9: 2 residues within 4Å: Chain A: H.129, R.172 6 PLIP interactions: 6 interactions with chain A Water bridges: A:A.128, A:H.129, A:Y.130, A:R.172 Salt bridges: A:H.129, A:R.172 PO4.10: 3 residues within 4Å: Chain A: H.79, K.120, T.355 4 PLIP interactions: 4 interactions with chain A Water bridges: A:H.79, A:H.79 Salt bridges: A:H.79, A:K.120

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Oliveira, R.R. et al., Crystal structure of the adenosine kinase from Mus musculus in complex with adenosine and adenosine-diphosphate. To Be Published

Release Date

2017-06-07

Peptides

Adenosine kinase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Adenosine kinase