SMTL ID : 6l3e.1

Crystal structure of Salmonella enterica sugar-binding protein MalE

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

monomer

Ligands

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

GLC-GLC-GLC-GLC.1: 24 residues within 4Å: Chain A: N.12, D.14, K.15, K.42, E.44, E.45, W.62, A.63, D.65, R.66, E.111, E.153, P.154, Y.155, F.156, W.230, M.330, W.340, Y.341, R.344 Ligands: 2ME.5, MG.9, BGC.10, GOL.14 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.42, A:E.44 Water bridges: A:K.42

1 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.2: 4 residues within 4Å: Chain A: Q.310, K.313, D.314, P.315 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:K.313, A:D.314 Water bridges: A:Q.310

4 x 2ME: METHOXYETHANE(Non-covalent)

2ME.3: 4 residues within 4Å: Chain A: R.344, T.345, N.349 Ligands: 2ME.6 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:T.345 2ME.4: 3 residues within 4Å: Chain A: Y.90, F.92, M.321 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:Y.90 Water bridges: A:Q.308 2ME.5: 7 residues within 4Å: Chain A: W.62, E.153 Ligands: GLC-GLC-GLC-GLC.1, GLC-GLC-GLC-GLC.1, GLC-GLC-GLC-GLC.1, GLC-GLC-GLC-GLC.1, MG.9 No protein-ligand interaction detected (PLIP) 2ME.6: 3 residues within 4Å: Chain A: R.344 Ligands: 2ME.3, BGC.10 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.344

3 x MG: MAGNESIUM ION(Non-covalent)

MG.7: 1 residues within 4Å: Chain A: L.76 No protein-ligand interaction detected (PLIP) MG.8: 2 residues within 4Å: Chain A: Q.152 Ligands: BGC.10 No protein-ligand interaction detected (PLIP) MG.9: 6 residues within 4Å: Chain A: N.12, K.42, E.44, W.62 Ligands: GLC-GLC-GLC-GLC.1, 2ME.5 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.44, H2O.2

1 x BGC: beta-D-glucopyranose(Non-covalent)

BGC.10: 6 residues within 4Å: Chain A: K.42, R.344 Ligands: GLC-GLC-GLC-GLC.1, 2ME.6, MG.8, GOL.14 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.42 Water bridges: A:R.344 Salt bridges: A:R.344

2 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)

TRS.11: 5 residues within 4Å: Chain A: K.15, Y.17, N.18, D.296, K.297 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:K.15, A:Y.17, A:Y.17, A:Y.17, A:N.18, A:N.18, A:K.297 Water bridges: A:K.297 TRS.12: 5 residues within 4Å: Chain A: L.121, V.122, L.135, E.138, L.139 No protein-ligand interaction detected (PLIP)

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.13: 7 residues within 4Å: Chain A: D.95, A.96, Y.176, I.329, M.330, P.331, N.332 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.95, A:N.332, A:N.332 Water bridges: A:N.332 GOL.14: 5 residues within 4Å: Chain A: K.42, E.45, Y.341 Ligands: GLC-GLC-GLC-GLC.1, BGC.10 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.42

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, L. et al., The crystal structure of Salmonella enterica sugar-binding protein MalE. To Be Published

Release Date

2019-10-23

Peptides

Maltodextrin-binding protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Maltodextrin-binding protein

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