Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 4-mer - A2B1C1 Local Symmetry: Cyclic - C2  (3D View)
Local Stoichiometry: Homo 2-mer - A2 

Local Symmetry: Cyclic - C2  (3D View)
Local Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 247.50 kDa 
• Atom Count: 13112 
• Modelled Residue Count: 1612 
• Deposited Residue Count: 2142 
• Unique protein chains: 3

5FWK

Atomic cryoEM structure of Hsp90-Cdc37-Cdk4 complex

• PDB DOI: 10.2210/pdb5FWK/pdb
• EM Map EMD-3337:EMDBEMDataResource

• Classification: SIGNALING PROTEIN
• Organism(s): Homo sapiens
• Expression System: Spodoptera frugiperda
• Mutation(s): No 


• Deposited: 2016-02-17 Released: 2016-07-06 
• Deposition Author(s): Verba, K.A., Wang, R.Y.R., Arakawa, A., Liu, Y., Yokoyama, S., Agard, D.A.

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.90 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Atomic Structure of Hsp90-Cdc37-Cdk4 Reveals that Hsp90 Traps and Stabilizes an Unfolded Kinase.

Verba, K.A., Wang, R.Y., Arakawa, A., Liu, Y., Shirouzu, M., Yokoyama, S., Agard, D.A.

(2016) Science 352: 1542

• PubMed: 27339980 
• DOI: 10.1126/science.aaf5023
• Primary Citation of Related Structures:  
  5FWK, 5FWL, 5FWM, 5FWP


• PubMed Abstract: 
  

The Hsp90 molecular chaperone and its Cdc37 cochaperone help stabilize and activate more than half of the human kinome. However, both the mechanism by which these chaperones assist their "client" kinases and the reason why some kinases are addicted to Hsp90 while closely related family members are independent are unknown. Our structural understanding of these interactions is lacking, as no full-length structures of human Hsp90, Cdc37, or either of these proteins with a kinase have been elucidated. Here we report a 3.9 angstrom cryo-electron microscopy structure of the Hsp90-Cdc37-Cdk4 kinase complex. Surprisingly, the two lobes of Cdk4 are completely separated with the β4-β5 sheet unfolded. Cdc37 mimics part of the kinase N lobe, stabilizing an open kinase conformation by wedging itself between the two lobes. Finally, Hsp90 clamps around the unfolded kinase β5 strand and interacts with exposed N- and C-lobe interfaces, protecting the kinase in a trapped unfolded state. On the basis of this structure and an extensive amount of previously collected data, we propose unifying conceptual and mechanistic models of chaperone-kinase interactions.

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Organizational Affiliation: 

Howard Hughes Medical Institute (HHMI) and the Department of Biochemistry and Biophysics, University of California San Francisco, San Francisco, CA 94158, USA. [e-mail].

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
HEAT SHOCK PROTEIN HSP 90 BETA	A, B	727	Homo sapiens	Mutation(s): 0  Gene Names: HSP90AB1, HSP90B, HSPC2, HSPCB
UniProt & NIH Common Fund Data Resources
Find proteins for P08238 (Homo sapiens) Explore P08238  Go to UniProtKB:  P08238
PHAROS:  P08238 GTEx:  ENSG00000096384

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
HSP90 CO-CHAPERONE CDC37	C [auth E]	378	Homo sapiens	Mutation(s): 0  Gene Names: CDC37, CDC37A
UniProt & NIH Common Fund Data Resources
Find proteins for Q16543 (Homo sapiens) Explore Q16543  Go to UniProtKB:  Q16543
PHAROS:  Q16543 GTEx:  ENSG00000105401

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
CYCLIN-DEPENDENT KINASE 4	D [auth K]	310	Homo sapiens	Mutation(s): 0  Gene Names: CDK4 EC: 2.7.11.22
UniProt & NIH Common Fund Data Resources
Find proteins for P11802 (Homo sapiens) Explore P11802  Go to UniProtKB:  P11802
PHAROS:  P11802 GTEx:  ENSG00000135446

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ATP	E [auth A], G [auth B]	ADENOSINE-5'-TRIPHOSPHATE C10 H16 N5 O13 P3 ZKHQWZAMYRWXGA-KQYNXXCUSA-N
MG	F [auth A], H [auth B]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
SEP	C [auth E]	L-PEPTIDE LINKING	C3 H8 N O6 P		SER

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.90 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2016-02-17 
• Released Date: 2016-07-06 
Deposition Author(s): Verba, K.A., Wang, R.Y.R., Arakawa, A., Liu, Y., Yokoyama, S., Agard, D.A.

Revision History  

• Version 1.0: 2016-07-06
  Type: Initial release
  
• Version 1.1: 2017-04-19
  Changes: Other
• Version 1.2: 2017-08-02
  Changes: Data collection
• Version 2.0: 2017-08-09
  Changes: Atomic model
• Version 2.1: 2017-08-30
  Changes: Data collection
• Version 2.2: 2019-08-21
  Changes: Data collection, Derived calculations