SMTL ID : 3zwe.1

Structure of BambL, a lectin from Burkholderia ambifaria, complexed with blood group B epitope

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

homo-trimer

Ligands

1 x GAL- FUC: alpha-L-fucopyranose-(1-2)-beta-D-galactopyranose(Non-covalent)

GAL-FUC.1: 10 residues within 4Å: Chain A: R.15, E.26, C.28, Y.35, G.37, A.38, F.39, I.59, W.74, W.79 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:I.59 Hydrogen bonds: A:R.15, A:E.26, A:A.38, A:F.39, A:R.15 Water bridges: A:Y.35

2 x BGC- GAL- FUC- GLA: alpha-L-fucopyranose-(1-2)-[alpha-D-galactopyranose-(1-3)]beta-D-galactopyranose-(1-4)-beta-D-glucopyranose(Non-covalent)

BGC-GAL-FUC-GLA.2: 13 residues within 4Å: Chain B: W.8, S.13, R.15, E.26, D.30, Y.35, T.36, G.37, A.38, F.39, I.59, W.74, W.79 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:I.59 Hydrogen bonds: B:R.15, B:E.26, B:A.38, B:F.39, B:S.13, B:S.13, B:R.15, B:T.36, B:A.38 Water bridges: B:D.30, B:Y.35 BGC-GAL-FUC-GLA.3: 13 residues within 4Å: Chain C: W.8, S.13, R.15, E.26, D.30, Y.35, T.36, G.37, A.38, F.39, I.59, W.74, W.79 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:W.8, C:I.59 Hydrogen bonds: C:R.15, C:E.26, C:Y.35, C:A.38, C:F.39, C:S.13, C:S.13, C:R.15, C:Y.35, C:T.36, C:A.38 Water bridges: C:D.30, C:Y.35, C:W.74

3 x FUC: alpha-L-fucopyranose(Non-covalent)

FUC.4: 10 residues within 4Å: Chain A: W.51, R.60, E.71, G.82, A.83, Y.84 Chain B: P.12, I.14, Y.29, W.34 7 PLIP interactions: 5 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:W.51, B:I.14, B:Y.29 Hydrogen bonds: A:E.71, A:A.83, A:Y.84 Salt bridges: A:R.60 FUC.5: 8 residues within 4Å: Chain B: R.60, E.71, G.82, A.83, Y.84 Chain C: I.14, Y.29, W.34 7 PLIP interactions: 4 interactions with chain B, 3 interactions with chain C Hydrogen bonds: B:E.71, B:A.83, B:Y.84 Salt bridges: B:R.60 Hydrophobic interactions: C:I.14, C:Y.29 Water bridges: C:Y.29 FUC.6: 9 residues within 4Å: Chain A: I.14, Y.29, W.34 Chain C: W.51, R.60, E.71, G.82, A.83, Y.84 8 PLIP interactions: 6 interactions with chain C, 2 interactions with chain A Hydrophobic interactions: C:W.51, A:I.14, A:Y.29 Hydrogen bonds: C:E.71, C:A.83, C:Y.84 Water bridges: C:R.60 Salt bridges: C:R.60

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Audfray, A. et al., Fucose-Binding Lectin from Opportunistic Pathogen Burkholderia Ambifaria Binds to Both Plant and Human Oligosaccharidic Epitopes. J.Biol.Chem. (2012)

Release Date

2011-12-21

Peptides

BAMBL LECTIN: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

BAMBL LECTIN

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