8P7J

Crystal structure of MAP2K6 with a covalent compound GCL96

• PDB DOI: https://doi.org/10.2210/pdb8P7J/pdb

• Classification: TRANSFERASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2023-05-30 Released: 2023-07-05 
• Deposition Author(s): Wang, G.Q., Seidler, N., Roehm, S., Gehringer, M., Knapp, S., Structural Genomics Consortium (SGC)
• Funding Organization(s): The Structural Genomics Consortium (SGC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 0.257 
• R-Value Work: 0.196 
• R-Value Observed: 0.199 

Starting Model: experimental

Literature

Crystal structure of MAP2K6 with a covalent compound GCL96

Wang, G.Q., Seidler, N., Roehm, S., Gehringer, M., Knapp, S., Structural Genomics Consortium (SGC)

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Macromolecule Content

• Total Structure Weight: 66.03 kDa 
• Atom Count: 4,441 
• Modelled Residue Count: 556 
• Deposited Residue Count: 580 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Dual specificity mitogen-activated protein kinase kinase 6	A, B	290	Homo sapiens	Mutation(s): 2  Gene Names: MAP2K6, MEK6, MKK6, PRKMK6, SKK3 EC: 2.7.12.2
UniProt & NIH Common Fund Data Resources
Find proteins for P52564 (Homo sapiens) Explore P52564  Go to UniProtKB:  P52564
PHAROS:  P52564 GTEx:  ENSG00000108984

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
X3K (Subject of Investigation/LOI)	C [auth A], D [auth B]	N-[3-(1H-pyrrolo[2,3-b]pyridin-4-yl)phenyl]prop-2-enamide C16 H13 N3 O JFALFLGHYNWCLU-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 0.257 
• R-Value Work: 0.196 
• R-Value Observed: 0.199 
• Space Group: P 2 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 66.712	α = 90
b = 96.92	β = 90
c = 104.806	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
Aimless	data scaling
MOLREP	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-07-05 
Deposition Author(s): Wang, G.Q., Seidler, N., Roehm, S., Gehringer, M., Knapp, S., Structural Genomics Consortium (SGC)

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Funding Organization	Location	Grant Number
The Structural Genomics Consortium (SGC)	Canada	--

Revision History  

• Version 1.0: 2023-07-05
  Type: Initial release
  
• Version 1.1: 2023-08-09
  Changes: Database references
• Version 1.2: 2024-11-13
  Changes: Data collection, Structure summary