SMTL ID : 4x9b.1

Crystal structure of Dscam1 isoform 4.44, N-terminal four Ig domains

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-dimer

Ligands

1 x NAG- NAG- BMA- MAN: alpha-D-mannopyranose-(1-6)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN.1: 8 residues within 4Å: Chain A: N.22, S.23, P.69, F.70, R.71, V.106, Q.107, F.109 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:F.109

1 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA.2: 7 residues within 4Å: Chain A: V.214 Chain B: N.22, S.23, A.72, E.73, V.106, Q.107 No protein-ligand interaction detected (PLIP)

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

NAG.3: 3 residues within 4Å: Chain A: N.298, G.303, E.304 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.298 Water bridges: A:R.253 NAG.6: 6 residues within 4Å: Chain B: Y.251, V.296, N.298, G.303, E.304, S.305 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.298, B:G.303

2 x NA: SODIUM ION(Non-functional Binders)

NA.4: 2 residues within 4Å: Chain A: E.13, E.388 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.388 Water bridges: A:E.388, A:S.390 NA.5: 4 residues within 4Å: Chain A: E.13, R.98, A.387, E.388 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.13, A:E.388

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, S.A. et al., Structural basis of Dscam1 homodimerization: Insights into context constraint for protein recognition. Sci Adv (2016)

Release Date

2015-12-16

Peptides

Down syndrome cell adhesion molecule, isoform 4.44: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Down syndrome cell adhesion molecule, isoform 4.44