SMTL ID : 5f7u.1

Cycloalternan-forming enzyme from Listeria monocytogenes in complex with pentasaccharide substrate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

monomer

Ligands

1 x GLC- GLC- GLC- GLC: alpha-D-glucopyranose-(1-6)-alpha-D-glucopyranose-(1-3)-[alpha-D-glucopyranose-(1-6)]alpha-D-glucopyranose

GLC-GLC-GLC-GLC.1: 14 residues within 4Å: Chain A: D.770, N.773, G.775, H.777, S.784, Y.785, Y.786, E.944, F.945, G.946, H.947, L.948, T.953, T.963 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:L.948, A:L.948

2 x GLC- GLC: alpha-D-glucopyranose-(1-6)-alpha-D-glucopyranose(Non-covalent)

GLC-GLC.2: 6 residues within 4Å: Chain A: A.414, T.415, Y.416, Y.468, E.469, Q.470 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:Y.416, A:Y.416, A:E.469, A:Q.470 Water bridges: A:Y.416, A:A.418, A:E.469 GLC-GLC.3: 10 residues within 4Å: Chain A: H.957, A.967, G.968, D.970, V.999, E.1000, W.1023, A.1052, G.1053, N.1055 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.970, A:E.1000, A:E.1000, A:G.1053

1 x GLC- GLC: alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose(Non-covalent)

GLC-GLC.4: 4 residues within 4Å: Chain A: Y.8, W.43, N.75, N.76 No protein-ligand interaction detected (PLIP)

1 x GLC- GLC- GLC: alpha-D-glucopyranose-(1-6)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose

GLC-GLC-GLC.5: 17 residues within 4Å: Chain A: N.273, Y.275, N.372, E.400, Q.401, E.405, Y.408, W.456, W.500, K.535, N.537, R.586, W.599, D.602, F.635, H.661, E.663 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.372, A:E.400, A:Y.408, A:Y.408 Water bridges: A:W.402

5 x MG: MAGNESIUM ION(Non-covalent)

MG.6: 5 residues within 4Å: Chain A: E.942, E.944, T.961, G.964, D.1057 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:E.942, A:E.944, A:T.961, A:G.964, A:D.1057 MG.7: 1 residues within 4Å: Chain A: N.349 No protein-ligand interaction detected (PLIP) MG.8: 3 residues within 4Å: Chain A: N.805, D.819, S.822 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.819, A:S.822, H2O.17, H2O.34, H2O.37 MG.9: 3 residues within 4Å: Chain A: E.373, D.375, D.379 6 PLIP interactions: 3 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:E.373, A:D.375, A:D.379, H2O.26, H2O.32, H2O.39 MG.10: 2 residues within 4Å: Chain A: Y.823, D.824 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:Y.823, A:D.824, H2O.37, H2O.37, H2O.43

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Light, S.H. et al., Structure to function of an alpha-glucan metabolic pathway that promotes Listeria monocytogenes pathogenesis. Nat Microbiol (2016)

Release Date

2016-09-21

Peptides

Cycloalternan-forming enzyme: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Cycloalternan-forming enzyme