SMTL ID : 3nv2.1

Crystal structure of human galectin-9 C-terminal CRD in complex with N-acetyllactosamine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.34 Å

Oligo State

homo-trimer

Ligands

3 x NDG- GAL: beta-D-galactopyranose-(1-4)-2-acetamido-2-deoxy-alpha-D-glucopyranose(Non-covalent)

NDG-GAL.1: 7 residues within 4Å: Chain A: H.50, N.52, R.54, N.63, W.70, E.73, R.75 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.54, A:N.63, A:E.73, A:R.54, A:R.54, A:R.75 Water bridges: A:R.36, A:H.50, A:N.52, A:N.52, A:W.70, A:E.57, A:E.57 NDG-GAL.3: 7 residues within 4Å: Chain B: H.50, N.52, R.54, N.63, W.70, E.73, R.75 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:R.54, B:N.63, B:E.73, B:R.54, B:R.54, B:R.75 Water bridges: B:R.36, B:H.50, B:N.52, B:N.52, B:W.70, B:E.57, B:E.57 NDG-GAL.5: 7 residues within 4Å: Chain C: H.50, N.52, R.54, N.63, W.70, E.73, R.75 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:R.54, C:N.63, C:E.73, C:R.54, C:R.54, C:R.75 Water bridges: C:R.36, C:H.50, C:N.52, C:N.52, C:W.70, C:E.57, C:E.57

3 x NI: NICKEL (II) ION(Non-covalent)

NI.2: 5 residues within 4Å: Chain A: H.135 Chain B: H.135 Chain C: H.135 Ligands: NI.4, NI.6 4 PLIP interactions: 1 interactions with chain B, 1 interactions with chain C, 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: B:H.135, C:H.135, A:H.135, H2O.1 NI.4: 5 residues within 4Å: Chain A: H.135 Chain B: H.135 Chain C: H.135 Ligands: NI.2, NI.6 4 PLIP interactions: 1 interactions with chain B, 1 interactions with chain C, 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: B:H.135, C:H.135, A:H.135, H2O.6 NI.6: 5 residues within 4Å: Chain A: H.135 Chain B: H.135 Chain C: H.135 Ligands: NI.2, NI.4 4 PLIP interactions: 1 interactions with chain B, 1 interactions with chain C, 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: B:H.135, C:H.135, A:H.135, H2O.6

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yoshida, H. et al., X-ray structures of human galectin-9 C-terminal domain in complexes with a biantennary oligosaccharide and sialyllactose. J.Biol.Chem. (2010)

Release Date

2010-09-22

Peptides

Galectin 9 short isoform variant: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

Galectin 9 short isoform variant

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