SMTL ID : 2oww.1

Covalent intermediate in amylomaltase in complex with the acceptor analog 4-deoxyglucose

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

monomer

Ligands

1 x GLC- AC1: 4,6-dideoxy-4-{[(1S,4R,5S,6S)-4,5,6-trihydroxy-3-(hydroxymethyl)cyclohex-2-en-1-yl]amino}-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose(Post Translational Modification)

GLC-AC1.1: 14 residues within 4Å: Chain A: S.60, Y.62, Q.63, Q.259, R.260, W.261, D.296, H.396, D.397, N.466, P.468, G.469, W.475 Ligands: G4D.2 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:Q.63 Hydrogen bonds: A:S.60, A:Q.63, A:Q.63, A:R.260, A:D.397, A:N.466, A:G.469, A:D.296, A:H.396, A:N.466

1 x G4D: 4-deoxy-alpha-D-glucopyranose(Non-covalent)

G4D.2: 9 residues within 4Å: Chain A: Q.259, W.261, D.296, H.297, E.343, L.345, G.346, D.397 Ligands: GLC-AC1.1 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.259, A:D.296, A:H.297, A:H.297, A:D.397

1 x MLI: MALONATE ION(Non-functional Binders)

MLI.3: 5 residues within 4Å: Chain A: Y.104, W.108, K.112, M.148, H.188 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:W.108 Hydrogen bonds: A:Y.104 Water bridges: A:M.148 Salt bridges: A:K.112, A:K.112, A:H.188

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 6 residues within 4Å: Chain A: F.254, Q.368, F.369, D.372, W.404, E.412 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.372, A:E.412 GOL.5: 10 residues within 4Å: Chain A: P.51, L.52, G.53, S.66, A.67, F.68, A.69, K.285, L.289, F.290 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:L.52, A:S.66 Water bridges: A:S.64, A:D.216, A:D.216

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Barends, T.R. et al., Three-way stabilization of the covalent intermediate in amylomaltase, an alpha-amylase-like transglycosylase. J.Biol.Chem. (2007)

Release Date

2007-04-03

Peptides

4-alpha-glucanotransferase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

4-alpha-glucanotransferase

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