SMTL ID : 4d4u.1

Crystal Structure of Fucose binding lectin from Aspergillus Fumigatus (AFL) in complex with LewisY tetrasaccharide.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.99 Å

Oligo State

homo-dimer

Ligands

4 x NAG- GAL- FUC: alpha-L-fucopyranose-(1-2)-beta-D-galactopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Non-functional Binders)(Non-covalent)

NAG-GAL-FUC.1: 8 residues within 4Å: Chain A: H.23, R.25, E.37, E.41, L.69, I.72, Y.88, W.94 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.69, A:I.72, A:Y.88 Hydrogen bonds: A:R.25, A:E.37, A:E.41, A:Y.88, A:Y.88 Water bridges: A:E.37, A:E.37 NAG-GAL-FUC.2: 13 residues within 4Å: Chain A: H.71, R.73, E.85, D.89, T.92, Y.95, G.97, G.98, L.99, L.123, L.125, W.141, W.146 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:L.125 Hydrogen bonds: A:R.73, A:E.85, A:G.98, A:L.99 Water bridges: A:Y.95, A:Y.95, A:L.123, A:W.141 Salt bridges: A:H.71 NAG-GAL-FUC.5: 7 residues within 4Å: Chain B: R.25, E.37, E.41, L.69, I.72, Y.88, W.94 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:Y.88, B:E.41 Hydrogen bonds: B:R.25, B:E.37, B:E.41, B:E.41 Water bridges: B:E.41 Salt bridges: B:H.23 NAG-GAL-FUC.6: 11 residues within 4Å: Chain B: H.71, R.73, E.85, Y.95, G.97, G.98, L.99, L.123, L.125, W.141, W.146 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:L.123, B:L.125 Hydrogen bonds: B:R.73, B:E.85, B:Y.95, B:G.98, B:L.99, B:Y.95 Water bridges: B:T.92 Salt bridges: B:H.71

3 x NDG- GAL- FUC- FUC: alpha-L-fucopyranose-(1-2)-beta-D-galactopyranose-(1-4)-[alpha-L-fucopyranose-(1-3)]2-acetamido-2-deoxy-alpha-D-glucopyranose(Non-functional Binders)

NDG-GAL-FUC-FUC.3: 12 residues within 4Å: Chain A: L.117, Q.124, R.126, E.138, M.140, N.142, T.150, P.174, I.176, Y.192, G.197, W.198 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:L.117, A:I.176, A:Y.192 Hydrogen bonds: A:R.126, A:E.138, A:T.150, A:T.150, A:T.150, A:R.126, A:R.126, A:N.142 Water bridges: A:Q.124, A:W.198 NDG-GAL-FUC-FUC.4: 9 residues within 4Å: Chain A: N.22, L.24, Y.40, W.44, D.280, R.282, E.296, N.300, H.303 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.300, A:Y.40, A:N.22, A:N.300 Water bridges: A:Y.40, A:N.300 Salt bridges: A:R.282 NDG-GAL-FUC-FUC.7: 12 residues within 4Å: Chain B: L.117, Q.124, R.126, E.138, M.140, N.142, T.150, P.174, I.176, Y.192, G.197, W.198 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:I.176, B:Y.192 Hydrogen bonds: B:R.126, B:E.138, B:T.150, B:T.150, B:T.150, B:R.126, B:N.142, B:Y.192

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

GAL-FUC.8: 5 residues within 4Å: Chain B: L.24, Y.40, W.44, R.282, E.296 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:L.24, B:Y.40 Hydrogen bonds: B:R.282, B:E.296, B:R.309 Water bridges: B:W.44

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.9: 5 residues within 4Å: Chain B: Y.168, R.177, Q.189, M.229, W.245 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:Y.168, B:Y.168, B:R.177, B:Q.189, B:Q.189 Water bridges: B:Y.199 GOL.10: 5 residues within 4Å: Chain A: Y.168, R.177, Q.189, M.229, W.245 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.168, A:Y.168, A:R.177, A:Q.189

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

FUC.11: 6 residues within 4Å: Chain A: R.230, Q.242, F.274, P.279, L.281, W.299 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:F.274, A:P.279, A:L.281, A:W.299 Hydrogen bonds: A:R.230, A:Q.242, A:Q.242 Salt bridges: A:R.230 FUC.12: 7 residues within 4Å: Chain B: R.230, Q.242, C.244, F.274, P.279, L.281, W.299 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:F.274, B:P.279, B:L.281, B:W.299 Hydrogen bonds: B:R.230, B:Q.242, B:Q.242 Salt bridges: B:R.230

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Houser, J. et al., Structural Insights Into Aspergillus Fumigatus Lectin Specificity: Afl Binding Sites are Functionally Non-Equivalent. Acta Crystallogr.,Sect.D (2015)

Release Date

2015-03-11

Peptides

FUCOSE-SPECIFIC LECTIN FLEA: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

FUCOSE-SPECIFIC LECTIN FLEA

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