SMTL ID : 5g4a.2 (1 other biounit)

AadA in complex with ATP and magnesium

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

monomer

Ligands

1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.1: 5 residues within 4Å: Chain A: E.151, R.152, L.153, F.154, T.155 No protein-ligand interaction detected (PLIP)

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.2: 4 residues within 4Å: Chain A: A.160, L.163, K.164, Q.260 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:A.160, A:Q.260

2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 3 residues within 4Å: Chain A: W.99, P.156, P.158 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:P.156 EDO.4: 2 residues within 4Å: Chain A: L.213, R.225 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.225 Water bridges: A:D.210, A:D.210, A:Q.228

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

CL.5: 2 residues within 4Å: Chain A: G.41, L.42 Ligand excluded by PLIP

3 x MG: MAGNESIUM ION(Non-covalent)

MG.6: 2 residues within 4Å: Chain A: N.45, Y.184 No protein-ligand interaction detected (PLIP) MG.7: 4 residues within 4Å: Chain A: D.47, D.49 Ligands: MG.8, ATP.9 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.47, A:D.49, H2O.2 MG.8: 7 residues within 4Å: Chain A: D.47, D.49, E.87 Ligands: MG.7, ATP.9, UNX.11, UNX.12 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.47, A:D.49, A:E.87, H2O.3

1 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.9: 22 residues within 4Å: Chain A: G.35, S.36, G.41, S.46, D.47, D.49, D.130, L.133, L.134, Q.137, L.166, T.189, R.192, I.193, T.196, F.202, K.205, Y.231 Ligands: MG.7, MG.8, UNX.11, UNX.12 26 PLIP interactions: 26 interactions with chain A Hydrogen bonds: A:S.36, A:S.36, A:S.46, A:D.47, A:Q.137, A:T.196, A:T.196 Water bridges: A:A.37, A:A.37, A:G.40, A:D.47, A:D.47, A:R.192, A:R.192, A:R.192, A:R.192, A:R.192, A:R.192, A:K.205, A:K.205, A:Y.231, A:Y.231 Salt bridges: A:R.192, A:K.205, A:K.205, A:K.205

3 x UNX: UNKNOWN ATOM OR ION(Non-functional Binders)

UNX.10: 4 residues within 4Å: Chain A: E.87, W.112 Ligands: UNX.11, UNX.12 No protein-ligand interaction detected (PLIP) UNX.11: 5 residues within 4Å: Chain A: E.87 Ligands: MG.8, ATP.9, UNX.10, UNX.12 No protein-ligand interaction detected (PLIP) UNX.12: 5 residues within 4Å: Chain A: E.87 Ligands: MG.8, ATP.9, UNX.10, UNX.11 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Stern, A.L. et al., Structural mechanism of AadA, a dual-specificity aminoglycoside adenylyltransferase fromSalmonella enterica. J.Biol.Chem. (2018)

Release Date

2017-11-29

Peptides

Aminoglycoside (3'') (9) adenylyltransferase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Aminoglycoside (3'') (9) adenylyltransferase

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