SMTL ID : 6v55.1

Full extracellular region of zebrafish Gpr126/Adgrg6

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.38 Å

Oligo State

hetero-1-1-mer

Ligands

1 x CA: CALCIUM ION(Non-covalent)

CA.1: 5 residues within 4Å: Chain A: E.53, D.61, D.98, S.100, V.101 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.53, A:D.61, A:D.61, A:D.98, H2O.2

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

NAG.2: 3 residues within 4Å: Chain A: Q.659, N.660, N.709 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.659 NAG.3: 4 residues within 4Å: Chain A: V.8, N.32, T.34, F.94 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.94 Hydrogen bonds: A:N.32, A:T.34 NAG.4: 1 residues within 4Å: Chain A: N.506 No protein-ligand interaction detected (PLIP) NAG.5: 3 residues within 4Å: Chain A: Q.514, N.554, T.556 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:T.556 NAG.6: 3 residues within 4Å: Chain A: Q.44, T.83, N.85 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.44, A:T.83, A:N.85 NAG.7: 3 residues within 4Å: Chain A: N.488, N.491, T.493 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.488 NAG.8: 3 residues within 4Å: Chain A: S.366, N.370, Y.381 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.370 NAG.9: 6 residues within 4Å: Chain A: R.479, N.480, S.482, D.500, N.503 Ligands: NAG.12 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.503 NAG.10: 4 residues within 4Å: Chain A: E.589, Q.592, K.593, N.704 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:Q.592, A:K.593 Hydrogen bonds: A:E.589, A:E.589, A:N.704 NAG.11: 2 residues within 4Å: Chain A: Y.723, N.759 No protein-ligand interaction detected (PLIP) NAG.12: 5 residues within 4Å: Chain A: Q.56, I.59, R.479, N.480 Ligands: NAG.9 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:R.479

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Leon, K. et al., Structural basis for adhesion G protein-coupled receptor Gpr126 function. Nat Commun (2020)

Release Date

2020-01-15

Peptides

Adhesion G-protein coupled receptor G6: A
Adhesion G-protein coupled receptor G6: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
Q

Adhesion G-protein coupled receptor G6

Adhesion G-protein coupled receptor G6