SMTL ID : 3zi8.1

Structure of the R17A mutant of the Ralstonia soleanacerum lectin at 1.5 Angstrom in complex with L-fucose

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

homo-trimer

Ligands

3 x FUL: beta-L-fucopyranose(Non-covalent)

FUL.1: 9 residues within 4Å: Chain A: W.53, R.62, E.73, G.84, A.85, Y.86 Chain C: I.16, W.31, W.36 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:W.53 Hydrogen bonds: A:R.62, A:E.73, A:A.85, A:Y.86 FUL.4: 9 residues within 4Å: Chain A: I.16, W.31, W.36 Chain B: W.53, R.62, E.73, G.84, A.85, Y.86 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:W.53 Hydrogen bonds: B:R.62, B:E.73, B:A.85, B:Y.86 FUL.7: 9 residues within 4Å: Chain B: I.16, W.31, W.36 Chain C: W.53, R.62, E.73, G.84, A.85, Y.86 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:W.53 Hydrogen bonds: C:R.62, C:E.73, C:A.85, C:Y.86

3 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 2 residues within 4Å: Chain A: A.7 Chain B: V.50 6 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: B:V.50, A:A.7, H2O.1, H2O.1, H2O.1, H2O.5 MG.5: 2 residues within 4Å: Chain B: A.7 Chain C: V.50 6 PLIP interactions: 1 interactions with chain B, 1 interactions with chain C, 4 Ligand-Water interactions Metal complexes: B:A.7, C:V.50, H2O.5, H2O.5, H2O.5, H2O.9 MG.8: 2 residues within 4Å: Chain A: V.50 Chain C: A.7 6 PLIP interactions: 1 interactions with chain C, 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: C:A.7, A:V.50, H2O.1, H2O.9, H2O.9, H2O.9

3 x MRD: (4R)-2-METHYLPENTANE-2,4-DIOL(Non-functional Binders)

MRD.3: 7 residues within 4Å: Chain A: W.10, E.28, C.30, Y.37, I.61, W.76, W.81 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:W.10, A:W.76, A:W.76, A:W.81 Hydrogen bonds: A:E.28 Water bridges: A:A.40, A:A.40 MRD.6: 7 residues within 4Å: Chain B: W.10, E.28, C.30, Y.37, I.61, W.76, W.81 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:W.10, B:W.76, B:W.76, B:W.81 Hydrogen bonds: B:E.28 Water bridges: B:A.40, B:A.40 MRD.9: 7 residues within 4Å: Chain C: W.10, E.28, C.30, Y.37, I.61, W.76, W.81 7 PLIP interactions: 7 interactions with chain C Hydrophobic interactions: C:W.10, C:W.76, C:W.76, C:W.81 Hydrogen bonds: C:E.28 Water bridges: C:A.40, C:A.40

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Arnaud, J. et al., Reduction of Lectin Valency Drastically Changes Glycolipid Dynamics in Membranes, But not Surface Avidity. Acs Chem.Biol. (2013)

Release Date

2013-07-31

Peptides

PUTATIVE FUCOSE-BINDING LECTIN PROTEIN: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

PUTATIVE FUCOSE-BINDING LECTIN PROTEIN