SMTL ID : 7p1m.1

Galectin-8 N-terminal carbohydrate recognition domain in complex with benzimidazole D-galactal ligand

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.52 Å

Oligo State

homo-dimer

Ligands

2 x 4IU: 2-[[(2R,3R,4R)-2-(hydroxymethyl)-3-oxidanyl-3,4-dihydro-2H-pyran-4-yl]oxymethyl]-3-methyl-benzimidazole-5-carboxylic acid(Non-covalent)

4IU.1: 12 residues within 4Å: Chain A: R.40, Q.42, R.54, H.60, N.62, R.64, V.72, N.74, W.81, E.84, Y.136, G.137 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:Y.136 Hydrogen bonds: A:R.40, A:R.40, A:Q.42, A:R.54, A:R.54, A:R.64, A:N.74, A:G.137 Water bridges: A:R.64 4IU.3: 12 residues within 4Å: Chain B: R.40, Q.42, R.54, H.60, N.62, R.64, V.72, N.74, W.81, E.84, Y.136, G.137 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:Y.136 Hydrogen bonds: B:R.40, B:R.40, B:Q.42, B:R.54, B:R.54, B:R.64, B:N.74, B:E.84, B:G.137 Water bridges: B:R.64

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.2: 6 residues within 4Å: Chain A: L.105, K.106, D.107, K.108 Chain B: G.126, K.129 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hassan, M. et al., Structure-Guided Design of d-Galactal Derivatives with High Affinity and Selectivity for the Galectin-8 N-Terminal Domain. Acs Med.Chem.Lett. (2021)

Release Date

2021-12-15

Peptides

Galectin-8: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Galectin-8

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