Human acyl-CoA thioesterases 4 in complex with undecan-2-one-CoA inhibitor

Experimental Data Snapshot

  • Resolution: 2.30 Å
  • R-Value Free: 0.257 
  • R-Value Work: 0.190 

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This is version 1.2 of the entry. See complete history


Correlation of structure and function in the human hotdog-fold enzyme hTHEM4.

Zhao, H.Lim, K.Choudry, A.Latham, J.A.Pathak, M.C.Dominguez, D.Luo, L.Herzberg, O.Dunaway-Mariano, D.

(2012) Biochemistry 51: 6490-6492

  • DOI: https://doi.org/10.1021/bi300968n
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    Human THEM4 (hTHEM4) is comprised of a catalytically active hotdog-fold acyl-CoA thioesterase domain and an N-terminal domain of unknown fold and function. hTHEM4 has been linked to Akt1 regulation and cell apoptosis. Herein, we report the X-ray structure of hHTEM4 bound with undecan-2-one-CoA. Structure guided mutagenesis was carried out to confirm the catalytic residues. The N-terminal domain is shown to be partially comprised of irregular and flexible secondary structure, reminiscent of a protein-binding domain. We demonstrate direct hTHEM4-Akt1 binding by immunoprecipitation and by inhibition of Akt1 kinase activity, thus providing independent evidence that hTHEM4 is an Akt1 negative regulator.

  • Organizational Affiliation

    Department of Chemistry and Chemical Biology, University of New Mexico, Albuquerque, NM 87131, USA.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Thioesterase superfamily member 4
A, B
209Homo sapiensMutation(s): 0 
Gene Names: CTMPTHEM4
EC: (PDB Primary Data), (UniProt)
UniProt & NIH Common Fund Data Resources
Find proteins for Q5T1C6 (Homo sapiens)
Explore Q5T1C6 
Go to UniProtKB:  Q5T1C6
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ5T1C6
Sequence Annotations
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
Query on 0ET

Download Ideal Coordinates CCD File 
C [auth A],
D [auth B],
E [auth B]
[[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-4-oxidanyl-3-phosphonooxy-oxolan-2-yl]methoxy-oxidanyl-phosphoryl] [(3R)-2,2-dimethyl-3-oxidanyl-4-oxidanylidene-4-[[3-oxidanylidene-3-[2-[(2R)-2-oxidanylundecyl]sulfanylethylamino]propyl]amino]butyl] hydrogen phosphate
C32 H58 N7 O17 P3 S
Binding Affinity Annotations 
IDSourceBinding Affinity
0ET Binding MOAD:  4GAH Ki: 800 (nM) from 1 assay(s)
PDBBind:  4GAH Kd: 800 (nM) from 1 assay(s)
Experimental Data & Validation

Experimental Data

  • Resolution: 2.30 Å
  • R-Value Free: 0.257 
  • R-Value Work: 0.190 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 56.608α = 90
b = 58.777β = 90
c = 135.436γ = 90
Software Package:
Software NamePurpose
Blu-Icedata collection
CrystalCleardata reduction
CrystalCleardata scaling

Structure Validation

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Ligand Structure Quality Assessment 

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2012-08-29
    Type: Initial release
  • Version 1.1: 2012-10-31
    Changes: Database references
  • Version 1.2: 2023-09-13
    Changes: Data collection, Database references, Derived calculations, Refinement description