SMTL ID : 4nm5.2 (1 other biounit)

Crystal structure of GSK-3/Axin complex bound to phosphorylated Wnt receptor LRP6 c-motif

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

hetero-2-2-mer

Ligands

2 x PRO- PRO- PRO- TPO- PRO- ARG: Phosphorylated Wnt receptor LRP6 c-motif(Non-covalent)

PRO-PRO-PRO-TPO-PRO-ARG.1: 13 residues within 4Å: Chain A: K.79, R.80, F.81, K.82, R.84, R.168, G.190, K.193, N.201, V.202, Y.204, I.205, C.206 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:F.81, A:F.81, A:Y.204, A:Y.204 Hydrogen bonds: A:R.80, A:K.82, A:V.202 Water bridges: A:S.191 Salt bridges: A:R.84, A:R.168, A:K.193 PRO-PRO-PRO-TPO-PRO-ARG.10: 13 residues within 4Å: Chain C: K.79, R.80, F.81, K.82, R.84, R.168, G.190, K.193, N.201, V.202, Y.204, I.205, C.206 11 PLIP interactions: 11 interactions with chain C Hydrophobic interactions: C:F.81, C:F.81, C:Y.204, C:Y.204 Hydrogen bonds: C:R.80, C:K.82, C:V.202 Water bridges: C:S.191 Salt bridges: C:R.84, C:R.168, C:K.193

2 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.2: 16 residues within 4Å: Chain A: F.55, A.71, K.73, V.98, L.120, D.121, Y.122, V.123, T.126, R.129, Q.173, N.174, L.176, D.188 Ligands: MG.7, MG.8 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:D.121, A:V.123 Water bridges: A:Q.173, A:D.188, A:D.188 Salt bridges: A:K.73, A:K.73 ADP.11: 16 residues within 4Å: Chain C: F.55, A.71, K.73, V.98, L.120, D.121, Y.122, V.123, T.126, R.129, Q.173, N.174, L.176, D.188 Ligands: MG.16, MG.17 7 PLIP interactions: 7 interactions with chain C Hydrogen bonds: C:D.121, C:V.123 Water bridges: C:Q.173, C:D.188, C:D.188 Salt bridges: C:K.73, C:K.73

8 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 5 residues within 4Å: Chain A: Y.44, T.47, K.74, S.106, N.117 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:Y.44, A:T.47, A:T.47, A:S.106, A:N.117, A:N.117 GOL.4: 9 residues within 4Å: Chain A: L.240, Q.242, P.243, I.244, V.292 Chain C: R.132, S.135, R.136, K.138 6 PLIP interactions: 3 interactions with chain C, 3 interactions with chain A Hydrogen bonds: C:R.132, C:R.132, C:K.138, A:P.243, A:V.292 Water bridges: A:Q.242 GOL.5: 6 residues within 4Å: Chain A: R.307, T.314, A.315, R.316, T.318, E.321 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.307, A:R.316, A:E.321 GOL.6: 4 residues within 4Å: Chain A: K.259, H.287 Chain C: R.136, A.137 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.259, A:K.259, A:K.259 GOL.12: 5 residues within 4Å: Chain C: Y.44, T.47, K.74, S.106, N.117 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:T.47, C:S.106, C:N.117, C:N.117 GOL.13: 9 residues within 4Å: Chain A: R.132, S.135, R.136, K.138 Chain C: L.240, Q.242, P.243, I.244, V.292 6 PLIP interactions: 3 interactions with chain C, 3 interactions with chain A Hydrogen bonds: C:P.243, C:V.292, A:R.132, A:R.132, A:K.138 Water bridges: C:Q.242 GOL.14: 6 residues within 4Å: Chain C: R.307, T.314, A.315, R.316, T.318, E.321 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:R.307, C:R.316, C:E.321 GOL.15: 4 residues within 4Å: Chain A: R.136, A.137 Chain C: K.259, H.287 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:K.259, C:K.259, C:K.259

4 x MG: MAGNESIUM ION(Non-covalent)

MG.7: 3 residues within 4Å: Chain A: N.174, D.188 Ligands: ADP.2 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.188, H2O.3 MG.8: 4 residues within 4Å: Chain A: K.73, D.188, G.190 Ligands: ADP.2 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.188 MG.16: 3 residues within 4Å: Chain C: N.174, D.188 Ligands: ADP.11 2 PLIP interactions: 1 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:D.188, H2O.8 MG.17: 4 residues within 4Å: Chain C: K.73, D.188, G.190 Ligands: ADP.11 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:D.188

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.9: 3 residues within 4Å: Chain A: I.284, K.285 Chain B: R.23 Ligand excluded by PLIP CL.18: 3 residues within 4Å: Chain C: I.284, K.285 Chain D: R.23 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Stamos, J.L. et al., Structural basis of GSK-3 inhibition by N-terminal phosphorylation and by the Wnt receptor LRP6. Elife (2014)

Release Date

2014-03-26

Peptides

GSK3B protein: AC
Axin-1: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

B
B

D
B

GSK3B protein

Axin-1

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