SMTL ID : 2yft.2 (1 other biounit)

Crystal structure of inulosucrase from Lactobacillus johnsonii NCC533 in complex with 1-kestose

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

homo-dimer

Ligands

2 x GLC- FRU- FRU: beta-D-fructofuranose-(2-1)-beta-D-fructofuranose-(2-1)-alpha-D-glucopyranose(Non-covalent)

GLC-FRU-FRU.1: 14 residues within 4Å: Chain A: W.128, D.129, M.153, W.196, S.197, R.281, D.282, E.298, E.379, E.381, R.399, R.402, Y.457, R.480 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:S.197, A:R.281, A:D.282, A:E.381, A:R.480, A:R.399, A:R.399, A:R.402 Water bridges: A:N.162, A:R.402, A:Y.476, A:Y.476, A:R.480 GLC-FRU-FRU.8: 14 residues within 4Å: Chain B: W.128, D.129, M.153, W.196, S.197, R.281, D.282, E.298, E.379, E.381, R.399, R.402, Y.457, R.480 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:D.129, B:S.197, B:R.281, B:D.282, B:E.381, B:R.480, B:R.399, B:R.399, B:R.402 Water bridges: B:N.162, B:R.402, B:Y.476, B:R.480

2 x CA: CALCIUM ION(Non-covalent)

CA.2: 5 residues within 4Å: Chain A: D.276, Q.307, W.344, N.346, D.378 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.276, A:W.344, A:D.378, A:D.378, H2O.12 CA.9: 5 residues within 4Å: Chain B: D.276, Q.307, W.344, N.346, D.378 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.276, B:W.344, B:D.378, B:D.378, H2O.32

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

SO4.3: 3 residues within 4Å: Chain A: R.95 Chain B: R.95 Ligands: SO4.10 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Water bridges: A:R.95 Salt bridges: A:R.95, B:R.95 SO4.4: 1 residues within 4Å: Chain A: K.121 2 PLIP interactions: 2 interactions with chain A Water bridges: A:K.121 Salt bridges: A:K.121 SO4.5: 3 residues within 4Å: Chain A: K.535, P.544, G.545 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.545 Water bridges: A:E.546 Salt bridges: A:K.535 SO4.10: 3 residues within 4Å: Chain A: R.95 Chain B: R.95 Ligands: SO4.3 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Salt bridges: A:R.95, B:R.95 Water bridges: B:R.95 SO4.11: 1 residues within 4Å: Chain B: K.121 2 PLIP interactions: 2 interactions with chain B Water bridges: B:K.121 Salt bridges: B:K.121 SO4.12: 3 residues within 4Å: Chain B: K.535, P.544, G.545 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:G.545 Water bridges: B:E.546 Salt bridges: B:K.535

4 x ACT: ACETATE ION(Non-functional Binders)

ACT.6: 4 residues within 4Å: Chain A: L.236, E.237, K.238, D.239 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:E.237 Hydrogen bonds: A:K.238, A:D.239, A:D.239 ACT.7: 4 residues within 4Å: Chain A: R.467, K.511, W.520, E.525 4 PLIP interactions: 4 interactions with chain A Water bridges: A:D.521, A:D.522 Salt bridges: A:R.467, A:K.511 ACT.13: 4 residues within 4Å: Chain B: L.236, E.237, K.238, D.239 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:E.237 Hydrogen bonds: B:K.238, B:D.239, B:D.239 ACT.14: 4 residues within 4Å: Chain B: R.467, K.511, W.520, E.525 4 PLIP interactions: 4 interactions with chain B Water bridges: B:D.521, B:D.522 Salt bridges: B:R.467, B:K.511

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pijning, T. et al., Crystal Structure of Inulosucrase from Lactobacillus: Insights Into the Substrate Specificity and Product Specificity of Gh68 Fructansucrases. J.Mol.Biol. (2011)

Release Date

2011-08-03

Peptides

LEVANSUCRASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

LEVANSUCRASE

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