SMTL ID : 4j3s.1

Crystal structure of barley limit dextrinase soaked with 300mM maltotetraose

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

monomer

Ligands

2 x GLC- GLC- GLC- GLC: alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose

GLC-GLC-GLC-GLC.1: 16 residues within 4Å: Chain A: A.458, E.530, W.532, F.534, D.561, R.564, N.571, F.573, D.641, D.662, N.663, R.717, D.718, K.747 Ligands: GLC-GLC-GLC.2, GLC-GLC-GLC.2 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:A.458, A:R.717, A:K.747 Water bridges: A:D.662, A:N.663 GLC-GLC-GLC-GLC.3: 10 residues within 4Å: Chain A: P.266, K.267, R.314, S.317, D.318, L.321, T.322, R.411, I.412, G.413 No protein-ligand interaction detected (PLIP)

1 x GLC- GLC- GLC: alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose

GLC-GLC-GLC.2: 10 residues within 4Å: Chain A: W.375, Y.377, N.378, A.459, M.460, D.662, D.718, Y.720, K.747 Ligands: GLC-GLC-GLC-GLC.1 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:A.459

6 x IOD: IODIDE ION(Non-functional Binders)

IOD.4: 3 residues within 4Å: Chain A: H.688, I.781, Q.870 Ligand excluded by PLIP IOD.5: 2 residues within 4Å: Chain A: P.182, R.242 Ligand excluded by PLIP IOD.6: 3 residues within 4Å: Chain A: T.514, T.515, D.521 Ligand excluded by PLIP IOD.7: 1 residues within 4Å: Chain A: N.872 Ligand excluded by PLIP IOD.8: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP IOD.9: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP

1 x CA: CALCIUM ION(Non-covalent)

CA.10: 4 residues within 4Å: Chain A: Q.368, D.371, Y.373, N.721 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:Q.368, A:D.371, A:Y.373, H2O.2, H2O.2

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.11: 9 residues within 4Å: Chain A: F.344, V.345, I.367, D.371, P.372, Y.373, G.723, D.724, W.725 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:V.345, A:D.724, A:D.724, A:D.724, A:W.725

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Moeller, M.S. et al., Oligosaccharide and substrate binding in the starch debranching enzyme barley limit dextrinase. J.Mol.Biol. (2015)

Release Date

2014-02-12

Peptides

Limit dextrinase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Limit dextrinase

Related Entries With Identical Sequence