SMTL ID : 4x8x.1

Crystal structure of Dscam1 isoform 1.9, N-terminal four Ig domains

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

homo-dimer

Ligands

3 x NAG- NAG- BMA- MAN: alpha-D-mannopyranose-(1-3)-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: 7 residues within 4Å: Chain A: N.22, S.23, F.70, R.71, A.72, V.106, A.107 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA-MAN.2: 11 residues within 4Å: Chain A: L.291, V.293, V.294, N.295, G.300, E.301 Chain B: D.99, H.101, R.378, N.379, D.380 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:D.99, B:H.101 Hydrophobic interactions: A:L.291 NAG-NAG-BMA-MAN.4: 11 residues within 4Å: Chain A: K.342, T.343, S.345, R.378 Chain B: R.250, K.261, V.293, N.295, G.300, E.301, S.302 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.342, A:K.342, A:S.345, A:R.378, A:R.378, A:K.342 Water bridges: A:T.343

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.3: 8 residues within 4Å: Chain B: N.22, S.23, F.70, R.71, A.72, V.106, A.107, Y.109 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Y.109, B:Y.109

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 11 residues within 4Å: Chain B: S.124, V.126, H.171, L.238, C.239, M.240, A.241, F.249, S.274, G.275, T.276 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:C.239, B:A.241, B:A.241, B:S.274, B:S.274, B:G.275, B:T.276

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 1.9: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Down Syndrome cell adhesion molecule isoform 1.9