Biological Assembly 1  

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

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

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

Macromolecule Content

• Total Structure Weight: 34.34 kDa 
• Atom Count: 2592 
• Modelled Residue Count: 284 
• Deposited Residue Count: 303 
• Unique protein chains: 1

3A7F

Human MST3 kinase

• PDB DOI: 10.2210/pdb3A7F/pdb

• Classification: TRANSFERASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2009-09-26 Released: 2010-02-02 
• Deposition Author(s): Ko, T.P., Jeng, W.Y., Liu, C.I., Lai, M.D., Wang, A.H.J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.55 Å
• R-Value Free: 0.219 
• R-Value Work: 0.195 
• R-Value Observed: 0.198 

Literature

Structures of human MST3 kinase in complex with adenine, ADP and Mn2+.

Ko, T.P., Jeng, W.Y., Liu, C.I., Lai, M.D., Wu, C.L., Chang, W.J., Shr, H.L., Lu, T.J., Wang, A.H.J.

(2010) Acta Crystallogr D Biol Crystallogr 66: 145-154

• PubMed: 20124694 
• DOI: 10.1107/S0907444909047507
• Primary Citation of Related Structures:  
  3A7F, 3A7G, 3A7H, 3A7I, 3A7J


• PubMed Abstract: 
  

The MST family is a subclass of mammalian serine/threonine kinases that are related to the yeast sterile-20 protein and are implicated in regulating cell growth and transformation. The MST3 protein contains a 300-residue catalytic domain and a 130-residue regulatory domain, which can be cleaved by caspase and activated by autophosphorylation, promoting apoptosis. Here, five crystal structures of the catalytic domain of MST3 are presented, including a complex with ADP and manganese, a unique cofactor preferred by the enzyme, and a complex with adenine. Similar to other protein kinases, the catalytic domain of MST3 folds into two lobes: the smaller N lobe forms the nucleotide-binding site and the larger C lobe recognizes the polypeptide substrate. The bound ADP and Mn(2+) ions are covered by a glycine-rich loop and held in place by Asn149 and Asp162. A different orientation was observed for the ligand in the MST3-adenine complex. In the activation loop, the side chain of Thr178 is phosphorylated and is sandwiched by Arg143 and Arg176. Comparison of this structure with other similar kinase structures shows a 180 degrees rotation of the loop, leading to activation of the enzyme. The well defined protein-ligand interactions also provide useful information for the design of potent inhibitors.

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Organizational Affiliation: 

Institute of Biological Chemistry, Academia Sinica, Taipei 115, Taiwan.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Serine/threonine kinase 24 (STE20 homolog, yeast)	A	303	Homo sapiens	Mutation(s): 0  Gene Names: STK24, MST3, STK3 EC: 2.7.11.1
UniProt & NIH Common Fund Data Resources
Find proteins for Q9Y6E0 (Homo sapiens) Explore Q9Y6E0  Go to UniProtKB:  Q9Y6E0
PHAROS:  Q9Y6E0 GTEx:  ENSG00000102572

Small Molecules

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.55 Å
• R-Value Free: 0.219 
• R-Value Work: 0.195 
• R-Value Observed: 0.198 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 99.138	α = 90
b = 59.263	β = 93.71
c = 61.542	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data collection
CNS	refinement
HKL-2000	data reduction
HKL-2000	data scaling
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2009-09-26 
• Released Date: 2010-02-02 
Deposition Author(s): Ko, T.P., Jeng, W.Y., Liu, C.I., Lai, M.D., Wang, A.H.J.

Revision History  

• Version 1.0: 2010-02-02
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2012-04-04
  Changes: Database references