SMTL ID : 5k8f.3 (2 other biounits)

Crystal structure of Acetyl-CoA Synthetase in complex with ATP and Acetyl-AMP from Cryptococcus neoformans H99

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.45 Å

Oligo State

monomer

Ligands

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

ATP.1: 18 residues within 4Å: Chain A: T.303, S.304, K.311, G.426, E.427, P.428, D.450, T.451, Y.452, W.453, M.454, T.455, D.541, I.553, R.556, K.654 Ligands: 6R9.2, MG.3 17 PLIP interactions: 17 interactions with chain A Hydrogen bonds: A:T.303, A:S.304, A:S.304, A:G.426, A:D.450, A:T.455, A:T.455, A:T.455, A:D.541, A:R.556 Water bridges: A:I.349, A:I.429 Salt bridges: A:K.311, A:K.654, A:K.654 pi-Stacking: A:Y.452, A:Y.452

1 x 6R9: [[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] ethanoate(Non-covalent)

6R9.2: 15 residues within 4Å: Chain A: I.349, V.425, G.426, E.427, P.428, D.450, T.451, Y.452, W.453, M.454, T.455, D.541, I.553, R.556 Ligands: ATP.1 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:I.349, A:V.425, A:W.453 Hydrogen bonds: A:G.426, A:D.450, A:T.455, A:T.455, A:T.455, A:D.541, A:R.556 Water bridges: A:I.429 pi-Stacking: A:Y.452, A:Y.452

2 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 2 residues within 4Å: Chain A: R.556 Ligands: ATP.1 No protein-ligand interaction detected (PLIP) MG.6: 2 residues within 4Å: Chain A: E.104, H.105 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.104, H2O.1

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

EDO.4: 6 residues within 4Å: Chain A: D.174, A.175, C.219, E.220, C.221, Y.519 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:A.175, A:Y.519, A:Y.519 Water bridges: A:D.174, A:D.174 EDO.5: 6 residues within 4Å: Chain A: V.27, H.28, L.30, A.544, K.554, E.572 No protein-ligand interaction detected (PLIP)

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

PO4.7: 3 residues within 4Å: Chain A: H.57, K.329, Y.330 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.330 Salt bridges: A:H.57, A:K.329

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Seattle Structural Genomics Center for Infectious Disease (SSGCID) et al., Crystal structure of Acetyl-CoA Synthetase in complex with ATP and Acetyl-AMP from Cryptococcus neoformans H99. To Be Published

Release Date

2016-07-13

Peptides

Acetyl-coenzyme A synthetase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

Acetyl-coenzyme A synthetase

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