SMTL ID : 5i24.1

Crystal Structure of Agd31B, alpha-transglucosylase in Glycoside Hydrolase Family 31, in complex with Cyclophellitol Aziridine probe CF021

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

monomer

Ligands

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

SO4.1: 2 residues within 4Å: Chain A: R.35, R.208 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.35, A:R.208 SO4.2: 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 SO4.3: 5 residues within 4Å: Chain A: P.299, T.300, P.301, L.302, D.303 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:L.302, A:D.303 SO4.4: 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 SO4.5: 6 residues within 4Å: Chain A: T.84, R.100, G.216, N.217, S.221, N.225 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.217, A:N.217, A:S.221, A:N.225 Salt bridges: A:R.100

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

PG4.6: 7 residues within 4Å: Chain A: L.543, R.546, W.618, Y.651, E.667, H.669 Ligands: EDO.10 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.546, A:R.546, A:E.667 Water bridges: A:H.637, A:Y.651

1 x 66U: (1R,2S,3S,4R,5S,6R)-5-amino-6-(hydroxymethyl)cyclohexane-1,2,3,4-tetrol(Covalent)

66U.7: 12 residues within 4Å: Chain A: F.248, D.276, L.277, I.318, W.387, D.389, L.390, R.440, W.454, D.457, F.490, H.517 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:D.389, A:L.390 Hydrogen bonds: A:D.276, A:D.276, A:D.389, A:R.440, A:D.457, A:H.517 Water bridges: A:E.320, A:D.457, A:D.457

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

EDO.8: 5 residues within 4Å: Chain A: Q.54, L.55, S.206, G.207, T.409 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:L.55, A:G.207 Water bridges: A:T.409, A:T.409 EDO.9: 3 residues within 4Å: Chain A: R.153, H.155, Q.164 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.164 EDO.10: 3 residues within 4Å: Chain A: F.617, W.618 Ligands: PG4.6 No protein-ligand interaction detected (PLIP)

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

TRS.11: 4 residues within 4Å: Chain A: H.708, S.741, R.775, K.794 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:H.708, A:R.775, A:K.794, A:K.794 Water bridges: A:D.742, A:Y.744, A:R.775

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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