SMTL ID : 7mel.1

Sco GlgEI-V279S in complex with 4-alpha-glucoside of validamine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

homo-dimer

Ligands

2 x Z3D: (1R,2R,3S,4S,6R)-4-amino-2,3-dihydroxy-6-(hydroxymethyl)cyclohexyl alpha-D-glucopyranoside(Non-covalent)

Z3D.1: 17 residues within 4Å: Chain A: K.264, N.268, S.279, W.281, A.282, Q.324, Y.357, D.359, I.360, R.392, D.394, N.395, E.423, D.480, K.534, Y.535 Ligands: CL.4 19 PLIP interactions: 19 interactions with chain A Hydrophobic interactions: A:D.394 Hydrogen bonds: A:K.264, A:N.268, A:S.279, A:W.281, A:Q.324, A:Q.324, A:R.392, A:R.392, A:N.395, A:N.395, A:D.480, A:D.480, A:D.480, A:Y.535, A:Y.535 Water bridges: A:D.480, A:K.534, A:K.534 Z3D.5: 17 residues within 4Å: Chain B: K.264, N.268, S.279, W.281, A.282, Q.324, Y.357, D.359, I.360, R.392, D.394, N.395, E.423, D.480, K.534, Y.535 Ligands: CL.7 18 PLIP interactions: 18 interactions with chain B Hydrophobic interactions: B:D.394 Hydrogen bonds: B:K.264, B:N.268, B:S.279, B:Q.324, B:Q.324, B:R.392, B:R.392, B:D.394, B:N.395, B:N.395, B:D.480, B:D.480, B:D.480, B:Y.535 Water bridges: B:E.423, B:K.534, B:K.534

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

PGE.2: 7 residues within 4Å: Chain A: N.62, V.64, R.66, P.72, W.75, E.105, R.191 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.62 Water bridges: A:R.66, A:R.66, A:R.191 PGE.6: 5 residues within 4Å: Chain B: S.44, D.574, R.591, Q.592, G.593 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:G.593 Water bridges: B:R.591 PGE.9: 3 residues within 4Å: Chain B: T.426, Y.445, W.448 No protein-ligand interaction detected (PLIP)

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

PEG.3: 3 residues within 4Å: Chain A: T.426, Y.445, W.448 2 PLIP interactions: 2 interactions with chain A Water bridges: A:W.448, A:E.527

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

CL.4: 2 residues within 4Å: Chain A: Y.357 Ligands: Z3D.1 Ligand excluded by PLIP CL.7: 2 residues within 4Å: Chain B: Y.357 Ligands: Z3D.5 Ligand excluded by PLIP

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

EDO.8: 2 residues within 4Å: Chain B: P.225, H.226 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Si, A. et al., Stereoselective synthesis of a 4-alpha-glucoside of valienamine and its X-ray structure in complex with Streptomyces coelicolor GlgE1-V279S. Sci Rep (2021)

Release Date

2021-07-14

Peptides

Alpha-1,4-glucan:maltose-1-phosphate maltosyltransferase 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Alpha-1,4-glucan:maltose-1-phosphate maltosyltransferase 1

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