Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

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

Macromolecule Content

• Total Structure Weight: 41.02 kDa 
• Atom Count: 2,945 
• Modelled Residue Count: 329 
• Deposited Residue Count: 352 
• Unique protein chains: 2

 3CQU

Crystal Structure of Akt-1 complexed with substrate peptide and inhibitor

• PDB DOI:  https://doi.org/10.2210/pdb3CQU/pdb

• Classification: TRANSFERASE
• Organism(s): Homo sapiens
• Expression System: Spodoptera frugiperda
• Mutation(s): Yes 


• Deposited: 2008-04-03 Released: 2008-05-27 
• Deposition Author(s): Pandit, J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 0.283 
• R-Value Work: 0.203 
• R-Value Observed: 0.207 

Literature

Synthesis and structure based optimization of novel Akt inhibitors

Lippa, B., Pan, G., Corbett, M., Li, C., Kauffman, G.S., Pandit, J., Robinson, S., Wei, L., Kozina, E., Marr, E.S., Borzillo, G., Knauth, E., Barbacci-Tobin, E.G., Vincent, P., Troutman, M., Baker, D., Rajamohan, F., Kakar, S., Clark, T., Morris, J.

(2008) Bioorg Med Chem Lett 18: 3359-3363

• PubMed: 18456494 
• DOI: https://doi.org/10.1016/j.bmcl.2008.04.034
• Primary Citation of Related Structures:  
  3CQU, 3CQW


• PubMed Abstract: 
  

Based on a high throughput screening hit, pyrrolopyrimidine inhibitors of the Akt kinase are explored. X-ray co-crystal structures of two lead series results in the understanding of key binding interactions, the design of new lead series, and enhanced potency. The syntheses of these series and their biological activities are described. Spiroindoline 13j is found to have an Akt1 kinase IC(50) of 2.4+/-0.6 nM, Akt cell potency of 50+/-19 nM, and provides 68% inhibition of tumor growth in a mouse xenograft model (50 mg/kg, qd, po).

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Organizational Affiliation: 

Pfizer, Inc., PGRD Groton, 558 Eastern Point Road, Groton, CT 06340, USA. [e-mail]

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
RAC-alpha serine/threonine-protein kinase	A	342	Homo sapiens	Mutation(s): 2  Gene Names: AKT1, PKB, RAC EC: 2.7.11.1
UniProt & NIH Common Fund Data Resources
Find proteins for P31749 (Homo sapiens) Explore P31749  Go to UniProtKB:  P31749
PHAROS:  P31749

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Glycogen synthase kinase-3 beta	B [auth C]	10	Homo sapiens	Mutation(s): 0  Gene Names: GSK3B EC: 2.7.11.26 (PDB Primary Data), 2.7.11.1 (UniProt)
UniProt & NIH Common Fund Data Resources
Find proteins for P49841 (Homo sapiens) Explore P49841  Go to UniProtKB:  P49841
PHAROS:  P49841

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CQU	C [auth A]	N-[2-(5-methyl-4H-1,2,4-triazol-3-yl)phenyl]-7H-pyrrolo[2,3-d]pyrimidin-4-amine C15 H13 N7 OKGCSZUKOGMZAL-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
TPO	A	L-PEPTIDE LINKING	C4 H10 N O6 P		THR

Binding Affinity Annotations
ID	Source	Binding Affinity
CQU	PDBBind:  3CQU	IC50: 151 (nM) from 1 assay(s)
	Binding MOAD:  3CQU	IC50: 151 (nM) from 1 assay(s)
	BindingDB:  3CQU	IC50: 151 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 0.283 
• R-Value Work: 0.203 
• R-Value Observed: 0.207 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 42.487	α = 90
b = 55.507	β = 105.24
c = 93.359	γ = 90

Software Package:

Software Name	Purpose
d*TREK	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-05-27 
Deposition Author(s): Pandit, J.

Revision History  

• Version 1.0: 2008-05-27
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2021-10-20
  Changes: Database references, Derived calculations, Source and taxonomy