SMTL ID : 5npe.1

Crystal Structure of cjAgd31B (alpha-transglucosylase from Glycoside Hydrolase Family 31) in complex with beta Cyclophellitol Aziridine probe KY358

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

monomer

Ligands

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

SO4.1: 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 SO4.2: 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 SO4.3: 4 residues within 4Å: Chain A: T.709, D.710, N.711, Q.712 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:T.709, A:T.709, A:D.710, A:N.711, A:N.711, A:Q.712 SO4.4: 2 residues within 4Å: Chain A: D.530, E.531 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.531 Water bridges: A:E.532 SO4.5: 6 residues within 4Å: Chain A: A.42, T.84, G.216, N.217, S.221, N.225 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.217, A:N.217, A:N.225 SO4.6: 4 residues within 4Å: Chain A: T.74, E.75, N.76, H.77 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.74, A:E.75, A:N.76, A:N.76 Salt bridges: A:H.77

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

PG4.7: 5 residues within 4Å: Chain A: L.543, R.546, W.618, Y.651, E.667 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.546, A:R.546

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

EDO.8: 2 residues within 4Å: Chain A: E.786, A.787 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:A.787 Water bridges: A:R.719 EDO.9: 3 residues within 4Å: Chain A: T.764, P.765, A.766 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:P.765

1 x 948: (1~{R},2~{S},3~{S},4~{R},5~{R},6~{R})-5-(hydroxymethyl)-7-azabicyclo[4.1.0]heptane-2,3,4-triol(Non-covalent)

948.10: 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 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:F.248, A:F.490 Hydrogen bonds: A:D.389, A:D.389, A:R.440, A:W.454, A:H.517 Water bridges: A:E.320, A:D.457

1 x OXL: OXALATE ION(Non-covalent)

OXL.11: 4 residues within 4Å: Chain A: H.708, D.710, S.741, K.794 7 PLIP interactions: 7 interactions with chain A Water bridges: A:S.741, A:D.742, A:Y.744, A:R.775 Salt bridges: A:H.708, A:K.794, A:K.794

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Artola, M. et al., 1,6-Cyclophellitol Cyclosulfates: A New Class of Irreversible Glycosidase Inhibitor. ACS Cent Sci (2017)

Release Date

2017-08-09

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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