Biological Assembly 1  

 3D View: Structure | Electron Density

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A1BC 

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

Macromolecule Content

• Total Structure Weight: 95.68 kDa 
• Atom Count: 6503 
• Residue Count: 816 
• Unique protein chains: 3

3C5W

Complex between PP2A-specific methylesterase PME-1 and PP2A core enzyme

• DOI: 10.2210/pdb3C5W/pdb

• Classification: HYDROLASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli, Spodoptera frugiperda
• Mutation(s): No 


• Deposited: 2008-02-01 Released: 2008-04-15 
• Deposition Author(s): Xing, Y., Li, Z., Chen, Y., Stock, J., Jeffrey, P.D., Shi, Y.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free: 0.263 
• R-Value Work: 0.195 
• R-Value Observed: 0.198 

Literature

Structural mechanism of demethylation and inactivation of protein phosphatase 2A.

Xing, Y., Li, Z., Chen, Y., Stock, J.B., Jeffrey, P.D., Shi, Y.

(2008) Cell 133: 154-163

• PubMed: 18394995 
• DOI: 10.1016/j.cell.2008.02.041
• Structures With Same Primary Citation


• PubMed Abstract: 
  

Protein phosphatase 2A (PP2A) is an important serine/threonine phosphatase that plays a role in many biological processes. Reversible carboxyl methylation of the PP2A catalytic subunit is an essential regulatory mechanism for its function. Demethylation and negative regulation of PP2A is mediated by a PP2A-specific methylesterase PME-1, which is conserved from yeast to humans. However, the underlying mechanism of PME-1 function remains enigmatic. Here we report the crystal structures of PME-1 by itself and in complex with a PP2A heterodimeric core enzyme. The structures reveal that PME-1 directly binds to the active site of PP2A and that this interaction results in the activation of PME-1 by rearranging the catalytic triad into an active conformation. Strikingly, these interactions also lead to inactivation of PP2A by evicting the manganese ions that are required for the phosphatase activity of PP2A. These observations identify a dual role of PME-1 that regulates PP2A activation, methylation, and holoenzyme assembly in cells.

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Organizational Affiliation: 

Department of Molecular Biology, Princeton University, Lewis Thomas Laboratory, Princeton, NJ 08544, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
PP2A A subunit	A	232	Homo sapiens	Mutation(s): 0  Gene Names: PPP2R1A
Find proteins for P30153 (Homo sapiens) Explore P30153  Go to UniProtKB:  P30153
NIH Common Fund Data Resources
PHAROS  P30153 GTEx  ENSG00000105568

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
PP2A C subunit	C	310	Homo sapiens	Mutation(s): 0  Gene Names: PPP2CA EC: 3.1.3.16
Find proteins for P67775 (Homo sapiens) Explore P67775  Go to UniProtKB:  P67775
NIH Common Fund Data Resources
PHAROS  P67775 GTEx  ENSG00000113575

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details
PP2A-specific methylesterase PME-1	P	310	Homo sapiens	Mutation(s): 0  Gene Names: PPME1 EC: 3.1.1.89
Find proteins for Q9Y570 (Homo sapiens) Explore Q9Y570  Go to UniProtKB:  Q9Y570
NIH Common Fund Data Resources
PHAROS  Q9Y570 GTEx  ENSG00000214517

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free: 0.263 
• R-Value Work: 0.195 
• R-Value Observed: 0.198 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 129.292	α = 90
b = 54.839	β = 110.87
c = 125.146	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
CBASS	data collection
DENZO	data reduction
SCALEPACK	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2008-02-01 
• Released Date: 2008-04-15 
Deposition Author(s): Xing, Y., Li, Z., Chen, Y., Stock, J., Jeffrey, P.D., Shi, Y.

Revision History 

• Version 1.0: 2008-04-15
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Advisory, Version format compliance
• Version 1.2: 2017-07-26
  Changes: Source and taxonomy