SMTL ID : 7zc9.1 (1 other biounit)

Human Pikachurin/EGFLAM C-terminal Laminin-G domain (LG3)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

monomer

Ligands

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

NAG.1: 2 residues within 4Å: Chain A: N.98 Ligands: SO4.10 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.98

10 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 3 residues within 4Å: Chain A: A.127, R.128, T.129 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:A.127, A:T.129 Water bridges: A:T.129, A:T.129 Salt bridges: A:R.128 SO4.3: 2 residues within 4Å: Chain A: R.105, W.106 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:W.106 Salt bridges: A:R.105 SO4.4: 4 residues within 4Å: Chain A: G.189, K.190, N.191, I.192 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.191, A:I.192, A:I.192 SO4.5: 3 residues within 4Å: Chain A: N.193, T.194, A.197 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.194 SO4.6: 3 residues within 4Å: Chain A: T.52, A.53, K.54 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.54 SO4.7: 3 residues within 4Å: Chain A: M.136, R.137, Q.138 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.137, A:R.137, A:Q.138 Water bridges: A:Q.138 SO4.8: 5 residues within 4Å: Chain A: D.71, L.88, G.89, M.136, N.140 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.140 SO4.9: 4 residues within 4Å: Chain A: R.67, P.68, N.69, S.70 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.69, A:S.70 SO4.10: 3 residues within 4Å: Chain A: N.98, R.128 Ligands: NAG.1 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.98 Water bridges: A:M.96, A:N.98 Salt bridges: A:R.128 SO4.11: 2 residues within 4Å: Chain A: Y.125, G.126 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.126

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Patil, D.N. et al., Structure of the photoreceptor synaptic assembly of the extracellular matrix protein pikachurin with the orphan receptor GPR179. Sci.Signal. (2023)

Release Date

2023-07-19

Peptides

Pikachurin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Pikachurin

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