SMTL ID : 8vmf.1

Crystal structure of a transition-state mimic of the GSK-3/Axin complex bound to a beta-catenin S45D peptide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

hetero-1-1-1-mer

Ligands

2 x MG: MAGNESIUM ION

MG.1: 4 residues within 4Å: Chain A: N.161, D.175 Ligands: AF3.3, ADP.4 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.175, H2O.4 MG.2: 4 residues within 4Å: Chain A: D.175, G.177 Ligands: AF3.3, ADP.4 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.175, H2O.2

1 x AF3: ALUMINUM FLUORIDE

AF3.3: 9 residues within 4Å: Chain A: G.40, S.41, D.156, K.158, D.175, S.194 Ligands: MG.1, MG.2, ADP.4 No protein-ligand interaction detected (PLIP)

1 x ADP: ADENOSINE-5'-DIPHOSPHATE

ADP.4: 21 residues within 4Å: Chain A: N.39, G.40, S.41, G.43, V.45, A.58, K.60, V.85, L.107, D.108, Y.109, V.110, T.113, R.116, Q.160, L.163, C.174, D.175 Ligands: MG.1, MG.2, AF3.3 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:S.41, A:F.42, A:G.43, A:G.43, A:D.108, A:V.110, A:D.175 Water bridges: A:T.113, A:R.116, A:R.116, A:K.158 Salt bridges: A:K.60, A:K.60

3 x GOL: GLYCEROL

GOL.5: 7 residues within 4Å: Chain A: Y.31, Y.46, I.59, K.61, F.91, S.93, N.104 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.31, A:Y.31, A:S.93, A:S.93 GOL.6: 6 residues within 4Å: Chain A: R.294, T.301, A.302, R.303, T.305, E.308 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.294, A:A.302 GOL.7: 5 residues within 4Å: Chain A: L.227, Q.229, P.230, I.231, V.279 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:V.279

1 x CL: CHLORIDE ION

CL.8: 2 residues within 4Å: Chain A: S.4, R.5 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Enos, M.D. et al., Structural and functional effects of phosphopriming and scaffolding in the kinase GSK-3 beta. Sci.Signal. (2024)

Release Date

2024-08-28

Peptides

Glycogen synthase kinase-3 beta: A
Axin-1: B
Catenin beta-1: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Glycogen synthase kinase-3 beta

Axin-1

Catenin beta-1

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