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

Crystal structure of inulosucrase from Lactobacillus johnsonii NCC533

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

monomer

Ligands

1 x CA: CALCIUM ION(Non-covalent)

CA.1: 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.11

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.2: 5 residues within 4Å: Chain A: F.186, Q.195, Y.212, K.214, D.251 Ligand excluded by PLIP

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

ACT.3: 2 residues within 4Å: Chain A: K.107, N.177 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.177 Water bridges: A:K.107 Salt bridges: A:K.107 ACT.4: 2 residues within 4Å: Chain A: D.357, N.360 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.357, A:N.360 ACT.5: 1 residues within 4Å: Chain A: R.402 2 PLIP interactions: 2 interactions with chain A Water bridges: A:R.402 Salt bridges: A:R.402

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

SO4.6: 4 residues within 4Å: Chain A: E.482, K.486, G.487, H.489 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.487 Salt bridges: A:K.486, A:H.489 SO4.7: 2 residues within 4Å: Chain A: K.121, V.122 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:V.122 SO4.8: 3 residues within 4Å: Chain A: K.535, P.544, G.545 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.545 Water bridges: A:E.546, A:W.547 Salt bridges: A:K.535 SO4.9: 4 residues within 4Å: Chain A: Y.233, D.249, N.250, K.359 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.249, A:N.250 Salt bridges: A:K.359 SO4.10: 3 residues within 4Å: Chain A: D.175, N.177, H.178 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.177 Salt bridges: A:H.178 SO4.11: 4 residues within 4Å: Chain A: K.105, N.526, D.528 Ligands: GOL.19 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.514, A:N.526, A:D.528 Salt bridges: A:K.105 SO4.12: 3 residues within 4Å: Chain A: S.68, K.69, E.70 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.68, A:K.69, A:E.70 Water bridges: A:K.69 SO4.13: 2 residues within 4Å: Chain A: E.237, D.239 3 PLIP interactions: 3 interactions with chain A Water bridges: A:K.238, A:K.238, A:K.238 SO4.14: 1 residues within 4Å: Chain A: R.95 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.95

9 x GOL: GLYCEROL(Non-functional Binders)

GOL.15: 10 residues within 4Å: Chain A: D.129, M.153, W.196, S.197, R.281, D.282, E.298, E.381 Ligands: GOL.22, GOL.23 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.129, A:S.197, A:R.281, A:E.381 GOL.16: 2 residues within 4Å: Chain A: D.337, R.341 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.341, A:R.341 GOL.17: 4 residues within 4Å: Chain A: R.467, K.511, W.520, E.525 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.467 Water bridges: A:W.520, A:D.522, A:E.525 GOL.18: 6 residues within 4Å: Chain A: D.288, D.289, N.290, Y.392, N.429, L.430 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:D.289, A:N.290, A:N.290, A:Y.392, A:L.430 Water bridges: A:D.428, A:T.431 GOL.19: 4 residues within 4Å: Chain A: N.174, D.175, N.514 Ligands: SO4.11 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.175, A:N.514 Water bridges: A:N.174, A:D.175 GOL.20: 14 residues within 4Å: Chain A: N.413, K.414, A.415, V.416, G.417, P.449, V.551, L.555, I.556, G.557, G.558, Y.559, N.560, L.561 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:V.416, A:G.558, A:G.558, A:N.560, A:L.561 Water bridges: A:N.560 GOL.21: 5 residues within 4Å: Chain A: K.391, V.426, S.427, D.428, N.504 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:K.391, A:D.428, A:D.428, A:N.504, A:N.504 GOL.22: 6 residues within 4Å: Chain A: W.128, M.153, N.162, W.196, R.480 Ligands: GOL.15 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:W.128, A:N.162, A:R.480, A:R.480 Water bridges: A:N.223 GOL.23: 7 residues within 4Å: Chain A: W.128, D.129, E.381, Y.457, Y.476, R.480 Ligands: GOL.15 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:D.129, A:Y.476, A:R.480 Water bridges: A:E.379, A:R.399, A:R.402

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: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

LEVANSUCRASE

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