3SLS

Crystal Structure of human MEK-1 kinase in complex with UCB1353770 and AMPPNP

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free: 0.287 
  • R-Value Work: 0.206 
  • R-Value Observed: 0.210 

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Literature

Engineering human MEK-1 for structural studies: A case study of combinatorial domain hunting.

Meier, C., Brookings, D.C., Ceska, T.A., Doyle, C., Gong, H., McMillan, D., Saville, G.P., Mushtaq, A., Knight, D., Reich, S., Pearl, L.H., Powell, K.A., Savva, R., Allen, R.A.

(2012) J Struct Biol 177: 329-334

  • DOI: 10.1016/j.jsb.2012.01.002
  • Primary Citation of Related Structures:  
    3SLS

  • PubMed Abstract: 

    • Structural biology studies typically require large quantities of pure, soluble protein. Currently the most widely-used method for obtaining such protein involves the use of bioinformatics and experimental methods to design constructs of the target, which are cloned and expressed ...

    Structural biology studies typically require large quantities of pure, soluble protein. Currently the most widely-used method for obtaining such protein involves the use of bioinformatics and experimental methods to design constructs of the target, which are cloned and expressed. Recently an alternative approach has emerged, which involves random fragmentation of the gene of interest and screening for well-expressing fragments. Here we describe the application of one such fragmentation method, combinatorial domain hunting (CDH), to a target which historically was difficult to express, human MEK-1. We show how CDH was used to identify a fragment which covers the kinase domain of MEK-1 and which expresses and crystallizes significantly better than designed expression constructs, and we report the crystal structure of this fragment which explains some of its superior properties. Gene fragmentation methods, such as CDH, thus hold great promise for tackling difficult-to-express target proteins.

    Related Citations: 
    • Fused thiophene derivatives as MEK inhibitors.
      Laing, V.E., Brookings, D.C., Carbery, R.J., Simorte, J.G., Hutchings, M.C., Langham, B.J., Lowe, M.A., Allen, R.A., Fetterman, J.R., Turner, J., Meier, C., Kennedy, J., Merriman, M.
      (2012) Bioorg Med Chem Lett 22: 472
    Organizational Affiliation: 

    UCB Pharma, 216 Bath Road, Slough SL1 4EN, United Kingdom. chris.meier@ucb.com



Macromolecules
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Dual specificity mitogen-activated protein kinase kinase 1A, B304Homo sapiensMutation(s): 0 
Gene Names: Human MEK-1 kinase, MAP2K1, MEK1, PRKMK1
EC: 2.7.12.2
UniProt & NIH Common Fund Data Resources
Find proteins for Q02750 (Homo sapiens)
Explore Q02750 
Go to UniProtKB:  Q02750
PHAROS:  Q02750
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ02750
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
77D
Query on 77D
Download Ideal Coordinates CCD File 
E [auth A],
H [auth B]		2-[(2-fluoro-4-iodophenyl)amino]-5,5-dimethyl-8-oxo-N-[(3R)-piperidin-3-yl]-5,6,7,8-tetrahydro-4H-thieno[2,3-c]azepine-3-carboxamide
C22 H26 F I N4 O2 S
YSSBOOQPHTZACI-CYBMUJFWSA-N		 Ligand Interaction
ANP
Query on ANP
Download Ideal Coordinates CCD File 
C [auth A],
F [auth B]		PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
C10 H17 N6 O12 P3
PVKSNHVPLWYQGJ-KQYNXXCUSA-N		 Ligand Interaction
MG
Query on MG
Download Ideal Coordinates CCD File 
D [auth A],
G [auth B]		MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N		 Ligand Interaction
Binding Affinity Annotations 
IDSourceBinding Affinity
77D BindingDB:  3SLS IC50: 22 (nM) from 1 assay(s)
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free: 0.287 
  • R-Value Work: 0.206 
  • R-Value Observed: 0.210 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 47.502α = 90
b = 153.89β = 101.48
c = 48.209γ = 90
Software Package:
Software NamePurpose
PHASERphasing
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling

Structure Validation

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Entry History 

Deposition Data

  • Deposited Date: 2011-06-25 
  • Released Date: 2012-02-29 
    • Deposition Author(s): Meier, C., Ceska, T.A.

Revision History  (Full details and data files)

  • Version 1.0: 2012-02-29
    Type: Initial release