5NZZ

Crystal structure of phosphorylated p38aMAPK in complex with TAB1

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.60 Å
  • R-Value Free: 0.271 
  • R-Value Work: 0.219 
  • R-Value Observed: 0.221 

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Literature

The TAB1-p38 alpha complex aggravates myocardial injury and can be targeted by small molecules.

De Nicola, G.F., Bassi, R., Nichols, C., Fernandez-Caggiano, M., Golforoush, P.A., Thapa, D., Anderson, R., Martin, E.D., Verma, S., Kleinjung, J., Laing, A., Hutchinson, J.P., Eaton, P., Clark, J., Marber, M.S.

(2018) JCI Insight 3

  • DOI: https://doi.org/10.1172/jci.insight.121144
  • Primary Citation of Related Structures:  
    5NZZ

  • PubMed Abstract: 

    • Inhibiting MAPK14 (p38α) diminishes cardiac damage in myocardial ischemia. During myocardial ischemia, p38α interacts with TAB1, a scaffold protein, which promotes p38α autoactivation; active p38α (pp38α) then transphosphorylates TAB1. Previously, we solved the X-ray structure of the p38α-TAB1 (residues 384-412) complex ...

    Inhibiting MAPK14 (p38α) diminishes cardiac damage in myocardial ischemia. During myocardial ischemia, p38α interacts with TAB1, a scaffold protein, which promotes p38α autoactivation; active p38α (pp38α) then transphosphorylates TAB1. Previously, we solved the X-ray structure of the p38α-TAB1 (residues 384-412) complex. Here, we further characterize the interaction by solving the structure of the pp38α-TAB1 (residues 1-438) complex in the active state. Based on this information, we created a global knock-in (KI) mouse with substitution of 4 residues on TAB1 that we show are required for docking onto p38α. Whereas ablating p38α or TAB1 resulted in early embryonal lethality, the TAB1-KI mice were viable and had no appreciable alteration in their lymphocyte repertoire or myocardial transcriptional profile; nonetheless, following in vivo regional myocardial ischemia, infarction volume was significantly reduced and the transphosphorylation of TAB1 was disabled. Unexpectedly, the activation of myocardial p38α during ischemia was only mildly attenuated in TAB1-KI hearts. We also identified a group of fragments able to disrupt the interaction between p38α and TAB1. We conclude that the interaction between the 2 proteins can be targeted with small molecules. The data reveal that it is possible to selectively inhibit signaling downstream of p38α to attenuate ischemic injury.

    Organizational Affiliation: 

    British Heart Foundation Centre of Excellence, The Rayne Institute, St. Thomas' Hospital, and.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
TGF-beta-activated kinase 1 and MAP3K7-binding protein 1A, B, C, D504Homo sapiensMutation(s): 0 
Gene Names: TAB1, MAP3K7IP1
UniProt & NIH Common Fund Data Resources
Find proteins for Q15750 (Homo sapiens)
Explore Q15750 
Go to UniProtKB:  Q15750
PHAROS:  Q15750
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ15750
Protein Feature View
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  • Reference Sequence
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(by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Mitogen-activated protein kinase 14E, F, G, H360Mus musculusMutation(s): 0 
Gene Names: Mapk14, Crk1, Csbp1, Csbp2
EC: 2.7.11.24
UniProt
Find proteins for P47811 (Mus musculus)
Explore P47811 
Go to UniProtKB:  P47811
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP47811
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
AGS
Query on AGS
Download Ideal Coordinates CCD File 
M [auth E],
P [auth F],
S [auth G],
V [auth H]		PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER
C10 H16 N5 O12 P3 S
NLTUCYMLOPLUHL-KQYNXXCUSA-N		 Ligand Interaction
NI
Query on NI
Download Ideal Coordinates CCD File 
I [auth A],
J [auth B],
K [auth C],
L [auth D],
O [auth E],
I [auth A],
J [auth B],
K [auth C],
L [auth D],
O [auth E],
R [auth F]
NICKEL (II) ION
Ni
VEQPNABPJHWNSG-UHFFFAOYSA-N		 Ligand Interaction
MG
Query on MG
Download Ideal Coordinates CCD File 
N [auth E],
Q [auth F],
T [auth G],
U [auth G],
W [auth H],
N [auth E],
Q [auth F],
T [auth G],
U [auth G],
W [auth H],
X [auth H]
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N		 Ligand Interaction
Modified Residues  2 Unique
IDChainsTypeFormula2D DiagramParent
PTR
Query on PTR		E, F, G, H L-PEPTIDE LINKINGC9 H12 N O6 PTYR
TPO
Query on TPO		E, F, G, H L-PEPTIDE LINKINGC4 H10 N O6 PTHR
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.60 Å
  • R-Value Free: 0.271 
  • R-Value Work: 0.219 
  • R-Value Observed: 0.221 
  • Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 66.879α = 89.26
b = 107.632β = 76.75
c = 144.204γ = 84.28
Software Package:
Software NamePurpose
PHENIXrefinement
xia2data reduction
xia2data scaling
PHASERphasing

Structure Validation

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Ligand Structure Quality Assessment 


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Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
BHFUnited KingdomBHF - FS/14/29/30896 - DE NICOLA

Revision History  (Full details and data files)

  • Version 1.0: 2018-05-30
    Type: Initial release
  • Version 1.1: 2018-09-19
    Changes: Data collection, Database references