SMTL ID : 5i23.1

Crystal Structure of Agd31B, alpha-transglucosylase in Glycoside Hydrolase Family 31, in complex with Cyclophellitol Aziridine probe CF022

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

monomer

Ligands

1 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.1: 8 residues within 4Å: Chain A: L.543, R.546, F.617, W.618, H.637, Y.651, E.667 Ligands: EDO.8 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.546, A:R.546, A:E.667

6 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 4 residues within 4Å: Chain A: T.709, D.710, N.711, Q.712 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.709, A:T.709, A:D.710, A:N.711, A:N.711 SO4.3: 2 residues within 4Å: Chain A: R.35, R.208 3 PLIP interactions: 3 interactions with chain A Water bridges: A:S.57 Salt bridges: A:R.35, A:R.208 SO4.4: 1 residues within 4Å: Chain A: R.774 3 PLIP interactions: 3 interactions with chain A Water bridges: A:R.774, A:R.774 Salt bridges: A:R.774 SO4.5: 2 residues within 4Å: Chain A: S.373, K.376 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:K.376 SO4.6: 5 residues within 4Å: Chain A: P.299, T.300, P.301, L.302, D.303 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:L.302, A:D.303 Water bridges: A:K.295, A:P.299 SO4.7: 5 residues within 4Å: Chain A: T.84, G.216, N.217, S.221, N.225 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.217, A:N.217, A:S.221, A:N.225

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

EDO.8: 3 residues within 4Å: Chain A: F.617, W.618 Ligands: PG4.1 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:F.617 EDO.9: 3 residues within 4Å: Chain A: H.708, S.741, K.794 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:H.708, A:K.794 Water bridges: A:D.742, A:Y.744

1 x 66V: 1-(8-{[(1S,2R,3S,4S,5R,6R)-2,3,4,5-tetrahydroxy-6-(hydroxymethyl)cyclohexyl]amino}octyl)triaza-1,2-dien-2-ium(Covalent)

66V.10: 15 residues within 4Å: Chain A: Y.156, F.248, D.276, L.277, I.318, Y.353, W.387, D.389, L.390, R.440, W.454, D.457, F.490, D.492, H.517 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:Y.156, A:Y.353, A:D.389, A:L.390 Hydrogen bonds: A:D.276, A:D.389, A:R.440, A:W.454, A:D.457, A:H.517 Water bridges: A:E.320, A:D.457, A:D.457

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jiang, J. et al., Detection of Active Mammalian GH31 alpha-Glucosidases in Health and Disease Using In-Class, Broad-Spectrum Activity-Based Probes. Acs Cent.Sci. (2016)

Release Date

2016-05-04

Peptides

Oligosaccharide 4-alpha-D-glucosyltransferase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Oligosaccharide 4-alpha-D-glucosyltransferase

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