2ERK | pdb_00002erk

PHOSPHORYLATED MAP KINASE ERK2

• PDB DOI: https://doi.org/10.2210/pdb2ERK/pdb

• Classification: PHOSPHOTRANSFERASE
• Organism(s): Rattus norvegicus
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 1997-06-26 Released: 1998-07-01 
• Deposition Author(s): Canagarajah, B.J., Goldsmith, E.J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 
  0.264 (Depositor) 
• R-Value Work: 
  0.192 (Depositor) 
• R-Value Observed: 
  0.192 (Depositor) 

Starting Model: experimental

Literature

Activation mechanism of the MAP kinase ERK2 by dual phosphorylation.

Canagarajah, B.J., Khokhlatchev, A., Cobb, M.H., Goldsmith, E.J.

(1997) Cell 90: 859-869

• PubMed: 9298898 
• DOI: https://doi.org/10.1016/s0092-8674(00)80351-7
• Primary Citation Related Structures: 
  2ERK


• PubMed Abstract: 
  

  The structure of the active form of the MAP kinase ERK2 has been solved, phosphorylated on a threonine and a tyrosine residue within the phosphorylation lip. The lip is refolded, bringing the phosphothreonine and phosphotyrosine into alignment with surface arginine-rich binding sites. Conformational changes occur in the lip and neighboring structures, including the P+1 site, the MAP kinase insertion, the C-terminal extension, and helix C. Domain rotation and remodeling of the proline-directed P+1 specificity pocket account for the activation. The conformation of the P+1 pocket is similar to a second proline-directed kinase, CDK2-CyclinA, thus permitting the origin of this specificity to be defined. Conformational changes outside the lip provide loci at which the state of phosphorylation can be felt by other cellular components.

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Organizational Affiliation: 
• Department of Biochemistry, The University of Texas Southwestern Medical Center at Dallas, 75235-9050, USA.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 42.39 kDa 
• Atom Count: 2,989 
• Modeled Residue Count: 353 
• Deposited Residue Count: 365 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
EXTRACELLULAR SIGNAL-REGULATED KINASE 2	A	365	Rattus norvegicus	Mutation(s): 2  Gene Names: ERK2 EC: 2.7.1 (PDB Primary Data), 2.7.11.24 (UniProt)
UniProt
Find proteins for P63086 (Rattus norvegicus) Explore P63086  Go to UniProtKB:  P63086

Small Molecules

Modified Residues  2 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
PTR	A	L-PEPTIDE LINKING	C9 H12 N O6 P		TYR
TPO	A	L-PEPTIDE LINKING	C4 H10 N O6 P		THR

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free:  0.264 (Depositor) 
• R-Value Work:  0.192 (Depositor) 
• R-Value Observed: 0.192 (Depositor) 

Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 92.5	α = 90
b = 92.5	β = 90
c = 103	γ = 90

Software Package:

Software Name	Purpose
X-PLOR	model building
X-PLOR	refinement
DENZO	data reduction
SCALEPACK	data scaling
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 1998-07-01 
Deposition Author(s): Canagarajah, B.J., Goldsmith, E.J.

Revision History  

• Version 1.0: 1998-07-01
  Type: Initial release
  
• Version 1.1: 2008-03-24
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2023-08-09
  Changes: Database references, Derived calculations, Other, Refinement description
• Version 1.4: 2024-11-06
  Changes: Data collection, Structure summary