SMTL ID : 3bix.2 (1 other biounit)

Crystal structure of the extracellular esterase domain of Neuroligin-1

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

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

NAG.1: 3 residues within 4Å: Chain A: R.21, I.65, N.67 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.21, A:N.67 NAG.2: 3 residues within 4Å: Chain A: R.264, T.268, N.273 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.268, A:N.273 NAG.7: 3 residues within 4Å: Chain B: R.21, I.65, N.67 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.67 NAG.8: 4 residues within 4Å: Chain B: R.264, T.268, N.273, S.275 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.273, B:S.275

1 x NI: NICKEL (II) ION(Non-covalent)

NI.3: 2 residues within 4Å: Chain A: H.570, H.572 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:H.570, A:H.572

7 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.4: 4 residues within 4Å: Chain A: R.549, A.550, N.551, K.552 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.551, A:K.552 EDO.5: 7 residues within 4Å: Chain A: F.17, P.58, P.59, Q.194, R.197, W.198, E.201 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.194, A:E.201 EDO.6: 10 residues within 4Å: Chain A: P.90, F.93, H.138, G.139, G.140, E.144, G.145, T.146, L.149, Y.150 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.139, A:T.146, A:T.146 Water bridges: A:G.139, A:Y.150 EDO.9: 4 residues within 4Å: Chain B: R.549, A.550, N.551, K.552 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.551, B:N.551, B:K.552 EDO.10: 7 residues within 4Å: Chain B: F.17, P.58, P.59, Q.194, R.197, W.198, E.201 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.194, B:E.201 EDO.11: 10 residues within 4Å: Chain B: M.88, G.140, G.219, A.220, S.223, S.246, G.247, W.253, W.415, H.455 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:S.223, B:S.223, B:W.415 Water bridges: B:S.251, B:S.251, B:S.251 EDO.12: 10 residues within 4Å: Chain B: P.90, F.93, H.138, G.139, G.140, E.144, G.145, T.146, L.149, Y.150 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:H.138, B:G.139, B:T.146, B:T.146, B:Y.150 Water bridges: B:G.139, B:Y.150

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Arac, D. et al., Structures of Neuroligin-1 and the Neuroligin-1/Neurexin-1beta Complex Reveal Specific Protein-Protein and Protein-Ca(2+) Interactions. Neuron (2007)

Release Date

2007-12-18

Peptides

Neuroligin-1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
D

Neuroligin-1

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