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

Crystal structure of the earthworm R-type lectin C-half in complex with Lactose

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

monomer

Ligands

2 x BGC- GAL: beta-D-galactopyranose-(1-4)-beta-D-glucopyranose(Non-covalent)

BGC-GAL.1: 10 residues within 4Å: Chain A: D.17, I.18, E.19, G.20, Q.21, I.30, W.32, K.35, N.42 Ligands: PO4.3 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:D.17, A:G.20, A:Q.21, A:K.35, A:K.35, A:N.42 Water bridges: A:E.19, A:E.19 BGC-GAL.2: 7 residues within 4Å: Chain A: D.101, I.102, I.103, K.104, W.116, H.119, N.123 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:K.104, A:K.104, A:K.104, A:D.101, A:K.104, A:K.104, A:H.119, A:N.123 Water bridges: A:S.105

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.3: 4 residues within 4Å: Chain A: W.32, K.35 Ligands: BGC-GAL.1, BGC-GAL.1 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:W.32 Salt bridges: A:K.35 PO4.4: 2 residues within 4Å: Chain A: L.93 Ligands: IMD.5 No protein-ligand interaction detected (PLIP)

2 x IMD: IMIDAZOLE(Non-covalent)

IMD.5: 6 residues within 4Å: Chain A: Q.50, G.51, I.84, L.93, R.96 Ligands: PO4.4 1 PLIP interactions: 1 interactions with chain A Water bridges: A:R.96 IMD.6: 3 residues within 4Å: Chain A: V.41, K.56, L.57 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:L.57

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Suzuki, R. et al., Sugar-complex structures of the C-half domain of the galactose-binding lectin EW29 from the earthworm Lumbricus terrestris. Acta Crystallogr.,Sect.D (2009)

Release Date

2008-09-02

Peptides

29-kDa galactose-binding lectin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

29-kDa galactose-binding lectin

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