Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Standalone Viewers  
Protein Workshop | Ligand Explorer

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 48032.64 
• Atom Count: 3100 
• Residue Count: 413 
• Unique protein chains: 2

4NM3

Crystal structure of GSK-3/Axin complex bound to phosphorylated N-terminal auto-inhibitory pS9 peptide

• DOI: 10.2210/pdb4NM3/pdb

• Classification: TRANSFERASE/PEPTIDE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli


• Deposited: 2013-11-14 Released: 2014-03-26 
• Deposition Author(s): Chu, M.L.-H., Stamos, J.L., Enos, M.D., Shah, N., Weis, W.I.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.1 Å
• R-Value Free: 0.242 
• R-Value Work: 0.194 

Literature

Structural basis of GSK-3 inhibition by N-terminal phosphorylation and by the Wnt receptor LRP6.

Stamos, J.L., Chu, M.L., Enos, M.D., Shah, N., Weis, W.I.

(2014) Elife 3: e01998-e01998

• PubMed: 24642411 
• DOI: 10.7554/eLife.01998
• Primary Citation of Related Structures:  
  4NU1, 4NM7, 4NM5, 4NM0


• PubMed Abstract: 
  

Glycogen synthase kinase-3 (GSK-3) is a key regulator of many cellular signaling pathways. Unlike most kinases, GSK-3 is controlled by inhibition rather than by specific activation. In the insulin and several other signaling pathways, phosphorylation of a serine present in a conserved sequence near the amino terminus of GSK-3 generates an auto-inhibitory peptide. In contrast, Wnt/β-catenin signal transduction requires phosphorylation of Ser/Pro rich sequences present in the Wnt co-receptors LRP5/6, and these motifs inhibit GSK-3 activity. We present crystal structures of GSK-3 bound to its phosphorylated N-terminus and to two of the phosphorylated LRP6 motifs. A conserved loop unique to GSK-3 undergoes a dramatic conformational change that clamps the bound pseudo-substrate peptides, and reveals the mechanism of primed substrate recognition. The structures rationalize target sequence preferences and suggest avenues for the design of inhibitors selective for a subset of pathways regulated by GSK-3. DOI: http://dx.doi.org/10.7554/eLife.01998.001.

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Organizational Affiliation: 

Department of Structural Biology, Stanford University, Stanford, United States.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Glycogen synthase kinase-3 beta	A	389	Homo sapiens	Mutation(s): 0  Gene Names: GSK3B EC: 2.7.11.26
Find proteins for P49841 (Homo sapiens) Go to Gene View: GSK3B Go to UniProtKB:  P49841

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
Axin-1	B	24	Homo sapiens	Mutation(s): 0  Gene Names: AXIN1 (AXIN)
Find proteins for O15169 (Homo sapiens) Go to Gene View: AXIN1 Go to UniProtKB:  O15169

Small Molecules

Ligands 5 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
ADP	A	ADENOSINE-5'-DIPHOSPHATE C10 H15 N5 O10 P2 XTWYTFMLZFPYCI-KQYNXXCUSA-N
CL	A	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M
GOL	A	GLYCEROL GLYCERIN; PROPANE-1,2,3-TRIOL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
MG	A	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N
DTT	A	2,3-DIHYDROXY-1,4-DITHIOBUTANE 1,4-DITHIOTHREITOL C4 H10 O2 S2 VHJLVAABSRFDPM-IMJSIDKUSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
SEP	A	L-PEPTIDE LINKING	C3 H8 N O6 P		SER

External Ligand Annotations
ID	Binding Affinity (Sequence Identity %)
CL	EC50: >3000000 nM (100) BINDINGDB

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.1 Å
• R-Value Free: 0.242 
• R-Value Work: 0.194 
• Space Group: P 6₁ 2 2

Unit Cell:

Length (Å)	Angle (°)
a = 81.032	α = 90.00
b = 81.032	β = 90.00
c = 281.085	γ = 120.00

Software Package:

Software Name	Purpose
XDS	data reduction
PHENIX	phasing
PHENIX	refinement
PDB_EXTRACT	data extraction
Aimless	data scaling
Blu-Ice	data collection

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2013-11-14 
• Released Date: 2014-03-26 
• Deposition Author(s): Chu, M.L.-H., Stamos, J.L., Enos, M.D., Shah, N., Weis, W.I.

Revision History 

• Version 1.0: 2014-03-26
  Type: Initial release
• Version 1.1: 2014-04-23
  Type: Database references