SMTL ID : 5y32.1

Crystal structure of PTP delta Ig1-Ig2 in complex with IL1RAPL1

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

hetero-1-1-mer

Ligands

1 x NAG- NAG- FUC: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-FUC.1: 7 residues within 4Å: Chain A: I.47, T.49, L.59, N.109, S.110, T.111, Y.112 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:I.47, A:L.59, A:Y.112

1 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.2: 6 residues within 4Å: Chain A: Y.131, S.133, K.136, E.171, G.199, N.200 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG- BMA- FUC: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-FUC.3: 8 residues within 4Å: Chain A: N.251, T.253, S.288, R.291, L.293, S.303, S.305, I.307 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.291, A:S.303

2 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.4: 5 residues within 4Å: Chain A: N.125, G.128, L.129, C.130, R.213 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.128 NAG.5: 3 residues within 4Å: Chain A: N.50, S.52, L.53 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.52

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yamagata, A. et al., Mechanisms of splicing-dependent trans-synaptic adhesion by PTP delta-IL1RAPL1/IL-1RAcP for synaptic differentiation. Nat Commun (2015)

Release Date

2017-08-16

Peptides

Interleukin-1 receptor accessory protein-like 1: A
Receptor-type tyrosine-protein phosphatase delta: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

Interleukin-1 receptor accessory protein-like 1

Receptor-type tyrosine-protein phosphatase delta