SMTL ID : 5oj6.1

Crystal structure of the chicken MDGA1 ectodomain in complex with the human neuroligin 1 (NL1(-A-B)) cholinesterase domain.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.30 Å

Oligo State

hetero-2-2-mer

Ligands

2 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.1: 8 residues within 4Å: Chain B: N.313, T.315, Q.317, H.340, P.376, E.474, R.499, Y.500 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:P.376 NAG-NAG-BMA.10: 8 residues within 4Å: Chain D: N.313, T.315, Q.317, H.340, P.376, E.474, R.499, Y.500 1 PLIP interactions: 1 interactions with chain D Hydrophobic interactions: D:P.376

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

NAG.2: 2 residues within 4Å: Chain B: N.239, W.278 Ligand excluded by PLIP NAG.3: 6 residues within 4Å: Chain B: S.258, H.259, S.260, N.289, K.301, T.303 Ligand excluded by PLIP NAG.4: 4 residues within 4Å: Chain B: S.629, N.631, N.686, K.688 Ligand excluded by PLIP NAG.5: 1 residues within 4Å: Chain B: N.217 Ligand excluded by PLIP NAG.6: 3 residues within 4Å: Chain B: T.394, E.412, N.414 Ligand excluded by PLIP NAG.7: 3 residues within 4Å: Chain B: L.71, N.72, T.74 Ligand excluded by PLIP NAG.8: 5 residues within 4Å: Chain B: F.558, N.559, R.583, E.584, S.586 Ligand excluded by PLIP NAG.9: 6 residues within 4Å: Chain B: Q.243, L.269, Q.271, N.274, T.276, W.278 Ligand excluded by PLIP NAG.11: 2 residues within 4Å: Chain D: N.239, W.278 Ligand excluded by PLIP NAG.12: 6 residues within 4Å: Chain D: S.258, H.259, S.260, N.289, K.301, T.303 Ligand excluded by PLIP NAG.13: 4 residues within 4Å: Chain D: S.629, N.631, N.686, K.688 Ligand excluded by PLIP NAG.14: 1 residues within 4Å: Chain D: N.217 Ligand excluded by PLIP NAG.15: 3 residues within 4Å: Chain D: T.394, E.412, N.414 Ligand excluded by PLIP NAG.16: 3 residues within 4Å: Chain D: L.71, N.72, T.74 Ligand excluded by PLIP NAG.17: 5 residues within 4Å: Chain D: F.558, N.559, R.583, E.584, S.586 Ligand excluded by PLIP NAG.18: 6 residues within 4Å: Chain D: Q.243, L.269, Q.271, N.274, T.276, W.278 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Elegheert, J. et al., Structural Mechanism for Modulation of Synaptic Neuroligin-Neurexin Signaling by MDGA Proteins. Neuron (2017)

Release Date

2017-08-23

Peptides

Neuroligin-1: AC
MAM domain-containing glycosylphosphatidylinositol anchor protein 1: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

B
B

D
B

Neuroligin-1

MAM domain-containing glycosylphosphatidylinositol anchor protein 1

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