SMTL ID : 5yn7.1

Crystal structure of Pullulanase from Klebsiella pneumoniae complex at 0.1 mM beta-cyclodextrin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.59 Å

Oligo State

monomer

Ligands

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

GLC-GLC-GLC-GLC-GLC-GLC-GLC.1: 10 residues within 4Å: Chain A: W.727, D.753, R.756, D.757, P.764, F.765, Y.831, N.832, N.854, R.908 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:W.727, A:R.756, A:Y.831, A:Y.831, A:N.832

5 x CA: CALCIUM ION(Non-covalent)

CA.2: 4 residues within 4Å: Chain A: A.569, D.572, Y.574, D.912 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:A.569, A:D.572, A:Y.574, H2O.3, H2O.5 CA.3: 4 residues within 4Å: Chain A: D.500, L.501, E.506, E.587 6 PLIP interactions: 4 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.500, A:L.501, A:E.506, A:E.587, H2O.2, H2O.7 CA.4: 1 residues within 4Å: Chain A: E.658 No protein-ligand interaction detected (PLIP) CA.5: 3 residues within 4Å: Chain A: D.167, T.169, D.181 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.167, A:D.167, A:T.169, A:D.181, A:D.181 CA.6: 6 residues within 4Å: Chain A: D.1013, S.1020, D.1022, V.1025, D.1026, Q.1089 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.1013, A:S.1020, A:D.1022, A:V.1025

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

EDO.7: 6 residues within 4Å: Chain A: K.551, W.916, R.919, D.926, N.928, V.931 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.551, A:W.916 Water bridges: A:N.928

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Saka, N. et al., Elucidation of the mechanism of interaction between Klebsiella pneumoniae pullulanase and cyclodextrin. Acta Crystallogr D Struct Biol (2018)

Release Date

2018-10-24

Peptides

PulA protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

PulA protein

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