SMTL ID : 5o7w.2 (1 other biounit)

Crystal structure of the 4-FLUORO RSL lectin in complex with Lewis x tetrasaccharide

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.35 Å

Oligo State

homo-trimer

Ligands

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

GAL-NAG-FUC-GAL.1: 15 residues within 4Å: Chain A: W.53, R.62, E.73, C.75, D.77, T.82, K.83, G.84, A.85, Y.86 Chain B: V.13, P.14, I.16, W.31, W.36 7 PLIP interactions: 4 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:R.62, A:E.73, A:A.85, A:Y.86, B:V.13 Hydrophobic interactions: B:I.16 Water bridges: B:V.13, B:V.13 GAL-NAG-FUC-GAL.4: 15 residues within 4Å: Chain B: W.53, R.62, E.73, C.75, D.77, T.82, K.83, G.84, A.85, Y.86 Chain C: V.13, P.14, I.16, W.31, W.36 7 PLIP interactions: 4 interactions with chain B, 3 interactions with chain C Hydrogen bonds: B:R.62, B:E.73, B:A.85, B:Y.86, C:V.13 Hydrophobic interactions: C:I.16 Water bridges: C:V.13, C:V.13 GAL-NAG-FUC-GAL.7: 15 residues within 4Å: Chain A: V.13, P.14, I.16, W.31, W.36 Chain C: W.53, R.62, E.73, C.75, D.77, T.82, K.83, G.84, A.85, Y.86 7 PLIP interactions: 4 interactions with chain C, 3 interactions with chain A Hydrogen bonds: C:R.62, C:E.73, C:A.85, C:Y.86, A:V.13 Hydrophobic interactions: A:I.16 Water bridges: A:V.13, A:V.13

3 x CA: CALCIUM ION(Non-functional Binders)

CA.2: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) CA.5: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) CA.8: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

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

EDO.3: 3 residues within 4Å: Chain A: R.17, E.28, W.76 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.17, A:E.28 EDO.6: 3 residues within 4Å: Chain B: R.17, E.28, W.76 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.17, B:E.28 Water bridges: B:Y.37 EDO.9: 3 residues within 4Å: Chain C: R.17, E.28, W.76 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:R.17, C:E.28 Water bridges: C:Y.37

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tobola, F. et al., Effect of Noncanonical Amino Acids on Protein-Carbohydrate Interactions: Structure, Dynamics, and Carbohydrate Affinity of a Lectin Engineered with Fluorinated Tryptophan Analogs. ACS Chem. Biol. (2018)

Release Date

2018-06-06

Peptides

Putative fucose-binding lectin protein: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
B

C
B

Putative fucose-binding lectin protein

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