SMTL ID : 4han.1

Crystal structure of Galectin 8 with NDP52 peptide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.55 Å

Oligo State

hetero-2-2-mer

Ligands

2 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)

NAD.1: 10 residues within 4Å: Chain A: R.47, Q.49, R.61, H.67, N.69, R.71, N.81, W.88, E.91 Ligands: PEG.2 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:R.47, A:Q.49, A:R.61, A:R.61, A:N.81, A:G.89 Water bridges: A:R.71 Salt bridges: A:R.47, A:R.47, A:R.61, A:H.67, A:H.67, A:R.71 NAD.4: 12 residues within 4Å: Chain B: R.47, Q.49, R.61, H.67, N.69, R.71, V.79, N.81, W.88, G.89, E.91 Ligands: PEG.5 13 PLIP interactions: 13 interactions with chain B Hydrogen bonds: B:R.47, B:Q.49, B:R.61, B:N.81, B:G.89, B:E.91 Water bridges: B:R.71 Salt bridges: B:R.47, B:R.47, B:R.61, B:H.67, B:H.67, B:R.71

3 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.2: 3 residues within 4Å: Chain A: R.61, Y.143 Ligands: NAD.1 No protein-ligand interaction detected (PLIP) PEG.3: 3 residues within 4Å: Chain A: K.255, H.262 Chain C: Y.9 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.255, A:H.262 PEG.5: 3 residues within 4Å: Chain B: R.61, Y.143 Ligands: NAD.4 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kim, B.W. et al., Structural basis for recognition of autophagic receptor NDP52 by the sugar receptor galectin-8. Nat Commun (2013)

Release Date

2013-03-20

Peptides

Galectin-8: AB
Calcium-binding and coiled-coil domain-containing protein 2: CD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Galectin-8

Calcium-binding and coiled-coil domain-containing protein 2